GenomeNet

Database: RefSeq
Entry: NC_009698
LinkDB: NC_009698
Original site: NC_009698 
LOCUS       NC_009698            3760560 bp    DNA     circular CON 23-AUG-2013
DEFINITION  Clostridium botulinum A str. Hall chromosome, complete genome.
ACCESSION   NC_009698
VERSION     NC_009698.1  GI:153934468
DBLINK      BioProject: PRJNA58931
KEYWORDS    RefSeq.
SOURCE      Clostridium botulinum A str. Hall
  ORGANISM  Clostridium botulinum A str. Hall
            Bacteria; Firmicutes; Clostridia; Clostridiales; Clostridiaceae;
            Clostridium.
REFERENCE   1  (bases 1 to 3760560)
  CONSRTM   NCBI Genome Project
  TITLE     Direct Submission
  JOURNAL   Submitted (26-JUL-2007) National Center for Biotechnology
            Information, NIH, Bethesda, MD 20894, USA
REFERENCE   2  (bases 1 to 3760560)
  AUTHORS   Brinkac,L.M., Daugherty,S., Dodson,R.J., Madupu,R., Brown,J.L.,
            Bruce,D., Detter,C., Munk,C., Smith,L.A., Smith,T.J., White,O. and
            Brettin,T.S.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-JUN-2007) Los Alamos National Laboratory, Los Alamos,
            NM, USA
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from CP000727.
            RefSeq Category: Reference Genome
                        UPR: UniProt Genome
            The authors wish to acknowledge the Intelligence Technology
            Innovation Center for funding the sequencing and the NIH/NIAID for
            funding the annotation at the Pathema Bioinformatics Resource
            Center.  For more information about this strain contact Theresa
            Smith, Integrated Toxicology, United States Army Medical Institute
            of Infectious Diseases, theresa.smith@amedd.army.mil.
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..3760560
                     /organism="Clostridium botulinum A str. Hall"
                     /mol_type="genomic DNA"
                     /strain="Hall"
                     /db_xref="taxon:441771"
     gene            1..1347
                     /gene="dnaA"
                     /locus_tag="CLC_0001"
                     /db_xref="GeneID:5400372"
                     /db_xref="Pathema:CLC_0001"
     CDS             1..1347
                     /gene="dnaA"
                     /locus_tag="CLC_0001"
                     /note="binds to the dnaA-box as an ATP-bound complex at
                     the origin of replication during the initiation of
                     chromosomal replication; can also affect transcription of
                     multiple genes including itself."
                     /codon_start=1
                     /transl_table=11
                     /product="chromosomal replication initiation protein"
                     /protein_id="YP_001385963.1"
                     /db_xref="GI:153935412"
                     /db_xref="GeneID:5400372"
                     /db_xref="Pathema:CLC_0001"
                     /translation="MNTHLTETWEKAINIIKGELTEVSFNTWIKSINPISLENNSLKL
                     AVPNDFTKGILESRYKDLIVNALKLLTSKKYNIDFIVTTEEKIEENQKNHNNEKSNIV
                     VNDEMSTMLNPKYTFDSFVIGNSNRFAHAASLAVAESPAKAYNPLFIYGGVGLGKTHL
                     MHAIGHYILHNNPKSQVVYVSSEKFTNELINSIKDDKNVEFRNKYRNIDILLVDDIQF
                     IAGKERTQEEFFHTFNALYEANKQIIISSDRPPKEIPTLEDRLRSRFEWGLIADIQAP
                     DFETRMAILKKKADVENLNIPNEVMVYIATKIKSNIRELEGALIRIVAFSSLTNKEIS
                     IDLASEALKDIISSKQTRQVTIDIIQEVVANYYNLKIEDLKSARRTRNIAFPRQIAMY
                     LSRKLTDMSLPKIGEEFGGRDHTTVIHAYEKISNNLKKDESLQNAIKELNKRINQK"
     misc_feature    13..1341
                     /gene="dnaA"
                     /locus_tag="CLC_0001"
                     /note="chromosomal replication initiation protein;
                     Reviewed; Region: dnaA; PRK00149"
                     /db_xref="CDD:234667"
     misc_feature    19..204
                     /gene="dnaA"
                     /locus_tag="CLC_0001"
                     /note="DnaA N-terminal domain; Region: DnaA_N; pfam11638"
                     /db_xref="CDD:221153"
     misc_feature    376..807
                     /gene="dnaA"
                     /locus_tag="CLC_0001"
                     /note="The AAA+ (ATPases Associated with a wide variety of
                     cellular Activities) superfamily represents an ancient
                     group of ATPases belonging to the ASCE (for additional
                     strand, catalytic E) division of the P-loop NTPase fold.
                     The ASCE division also includes ABC; Region: AAA; cd00009"
                     /db_xref="CDD:99707"
     misc_feature    451..474
                     /gene="dnaA"
                     /locus_tag="CLC_0001"
                     /note="Walker A motif; other site"
                     /db_xref="CDD:99707"
     misc_feature    order(454..477,640..642,742..744)
                     /gene="dnaA"
                     /locus_tag="CLC_0001"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:99707"
     misc_feature    628..645
                     /gene="dnaA"
                     /locus_tag="CLC_0001"
                     /note="Walker B motif; other site"
                     /db_xref="CDD:99707"
     misc_feature    778..780
                     /gene="dnaA"
                     /locus_tag="CLC_0001"
                     /note="arginine finger; other site"
                     /db_xref="CDD:99707"
     misc_feature    1066..1335
                     /gene="dnaA"
                     /locus_tag="CLC_0001"
                     /note="C-terminal domain of bacterial DnaA proteins. The
                     DNA-binding C-terminal domain of DnaA contains a
                     helix-turn-helix motif that specifically interacts with
                     the DnaA box, a 9-mer motif that occurs repetitively in
                     the replication origin oriC. Multiple...; Region:
                     Bac_DnaA_C; cd06571"
                     /db_xref="CDD:119330"
     misc_feature    order(1135..1137,1159..1164,1183..1185,1201..1209,
                     1234..1248,1255..1257,1264..1269)
                     /gene="dnaA"
                     /locus_tag="CLC_0001"
                     /note="DnaA box-binding interface [nucleotide binding];
                     other site"
                     /db_xref="CDD:119330"
     gene            1610..2713
                     /gene="dnaN"
                     /locus_tag="CLC_0002"
                     /db_xref="GeneID:5400292"
                     /db_xref="Pathema:CLC_0002"
     CDS             1610..2713
                     /gene="dnaN"
                     /locus_tag="CLC_0002"
                     /EC_number="2.7.7.7"
                     /note="binds the polymerase to DNA and acts as a sliding
                     clamp"
                     /codon_start=1
                     /transl_table=11
                     /product="DNA polymerase III subunit beta"
                     /protein_id="YP_001385964.1"
                     /db_xref="GI:153937046"
                     /db_xref="GeneID:5400292"
                     /db_xref="Pathema:CLC_0002"
                     /translation="MKITCQKNILLEGISIVQKAVTGKSTLPILSGILIRANKNELVL
                     TGSDMDLSIETKVKANILEEGTIVLDARLFGEIIRKLPNDLIEINTLEDNSIEIICQN
                     SRFNLIYMNPGEFPNPPIINENMIFSIGESKLKNMIKGTIFATAQDETRPILTGVLFQ
                     IKDKMLNLVALDGYRLALRSEVVDNDNTINAVIPGKTLNEVSKILEEDNENVNITFTP
                     NHILFSIGETKIISRLLEGEFISYKSIIPEEFNLKIIAKRSELLNSIERASLMAKEGN
                     TNLVKFDFSDDKIVITSNSQLGMVREELKVVLQGEDLQIAFNSKYLLDVLKTMEDNEV
                     VLEFSSSVSPCIIKNTEINNCTYLVLPVRLNNN"
     misc_feature    1610..2701
                     /gene="dnaN"
                     /locus_tag="CLC_0002"
                     /note="DNA polymerase III subunit beta; Validated; Region:
                     PRK05643"
                     /db_xref="CDD:235541"
     misc_feature    1610..2698
                     /gene="dnaN"
                     /locus_tag="CLC_0002"
                     /note="Beta clamp domain.  The beta subunit (processivity
                     factor) of DNA polymerase III holoenzyme, refered to as
                     the beta clamp, forms a ring shaped dimer that encircles
                     dsDNA (sliding clamp) in bacteria.  The beta-clamp is
                     structurally similar to the trimeric...; Region:
                     beta_clamp; cd00140"
                     /db_xref="CDD:238082"
     misc_feature    order(1679..1681,1823..1825,1844..1846,2195..2197)
                     /gene="dnaN"
                     /locus_tag="CLC_0002"
                     /note="putative DNA binding surface [nucleotide binding];
                     other site"
                     /db_xref="CDD:238082"
     misc_feature    order(1826..1828,1835..1837,1913..1915,1919..1921,
                     2417..2419,2510..2515)
                     /gene="dnaN"
                     /locus_tag="CLC_0002"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:238082"
     misc_feature    order(2120..2122,2126..2137,2561..2563,2687..2698)
                     /gene="dnaN"
                     /locus_tag="CLC_0002"
                     /note="beta-clamp/clamp loader binding surface; other
                     site"
                     /db_xref="CDD:238082"
     misc_feature    order(2120..2122,2126..2131,2342..2344,2450..2452,
                     2489..2494,2570..2572,2687..2698)
                     /gene="dnaN"
                     /locus_tag="CLC_0002"
                     /note="beta-clamp/translesion DNA polymerase binding
                     surface; other site"
                     /db_xref="CDD:238082"
     gene            2732..2938
                     /locus_tag="CLC_0003"
                     /db_xref="GeneID:5400522"
                     /db_xref="Pathema:CLC_0003"
     CDS             2732..2938
                     /locus_tag="CLC_0003"
                     /note="identified by match to protein family HMM PF01479;
                     match to protein family HMM TIGR02988"
                     /codon_start=1
                     /transl_table=11
                     /product="S4 domain-containing protein"
                     /protein_id="YP_001385965.1"
                     /db_xref="GI:153936289"
                     /db_xref="GeneID:5400522"
                     /db_xref="Pathema:CLC_0003"
                     /translation="MVEIKINSEIIKLDSFLKWSGATTLGSEAKFFIQNGEVKVNGEI
                     EKRRGRKLKIDDLIEFNNETYKII"
     misc_feature    2750..2935
                     /locus_tag="CLC_0003"
                     /note="S4 domain; Region: S4_2; pfam13275"
                     /db_xref="CDD:205455"
     gene            3007..4101
                     /gene="recF"
                     /locus_tag="CLC_0004"
                     /db_xref="GeneID:5401795"
                     /db_xref="Pathema:CLC_0004"
     CDS             3007..4101
                     /gene="recF"
                     /locus_tag="CLC_0004"
                     /note="Required for DNA replication; binds preferentially
                     to single-stranded, linear DNA"
                     /codon_start=1
                     /transl_table=11
                     /product="recombination protein F"
                     /protein_id="YP_001385966.1"
                     /db_xref="GI:153935303"
                     /db_xref="GeneID:5401795"
                     /db_xref="Pathema:CLC_0004"
                     /translation="MYIKNVHLINFRNYDDMYLELSPNTNIFVGNNAQGKTNILESIY
                     YSSIGKSHRTNKDKDLIKWDKNNTYLRTYVSRERLDKTIDINIFKNGKKAITVNKIKI
                     KKISELMGNLNVVMFSPEDLRIIKDSPGNRRKFLDIELCKINNVYYHDLVQYNKILSE
                     RNTALKNWNNKINDIIDIYDEQLSKYGAFIIKERNKYLDKLNIIGKNIHKKITNDLED
                     INFRYLTNIKDFDNAEKELLIVLKKNRKKDLERNSTSIGPHRDDFEVSINNIDTRIFG
                     SQGQQRTAVLTLKFASLEIIKNIIGEYPVLLLDDVLSELDSNRQKFVLNSIDKIQTII
                     TCTGIEEIDKYLDKKQSQLYLVNNGKIKRV"
     misc_feature    3007..4095
                     /gene="recF"
                     /locus_tag="CLC_0004"
                     /note="recombination protein F; Reviewed; Region: recF;
                     PRK00064"
                     /db_xref="CDD:234608"
     misc_feature    3013..>3501
                     /gene="recF"
                     /locus_tag="CLC_0004"
                     /note="ATP-binding cassette domain of RecF; Region:
                     ABC_RecF; cd03242"
                     /db_xref="CDD:213209"
     misc_feature    3094..3117
                     /gene="recF"
                     /locus_tag="CLC_0004"
                     /note="Walker A/P-loop; other site"
                     /db_xref="CDD:213209"
     misc_feature    order(3103..3108,3112..3120,3310..3312)
                     /gene="recF"
                     /locus_tag="CLC_0004"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:213209"
     misc_feature    3301..3312
                     /gene="recF"
                     /locus_tag="CLC_0004"
                     /note="Q-loop/lid; other site"
                     /db_xref="CDD:213209"
     misc_feature    <3754..4092
                     /gene="recF"
                     /locus_tag="CLC_0004"
                     /note="ATP-binding cassette transporter nucleotide-binding
                     domain; Region: ABC_ATPase; cl17201"
                     /db_xref="CDD:247755"
     misc_feature    3832..3861
                     /gene="recF"
                     /locus_tag="CLC_0004"
                     /note="ABC transporter signature motif; other site"
                     /db_xref="CDD:213179"
     misc_feature    3919..3936
                     /gene="recF"
                     /locus_tag="CLC_0004"
                     /note="Walker B; other site"
                     /db_xref="CDD:213179"
     misc_feature    3943..3954
                     /gene="recF"
                     /locus_tag="CLC_0004"
                     /note="D-loop; other site"
                     /db_xref="CDD:213179"
     misc_feature    4006..4026
                     /gene="recF"
                     /locus_tag="CLC_0004"
                     /note="H-loop/switch region; other site"
                     /db_xref="CDD:213179"
     gene            4122..4385
                     /locus_tag="CLC_0005"
                     /db_xref="GeneID:5398732"
                     /db_xref="Pathema:CLC_0005"
     CDS             4122..4385
                     /locus_tag="CLC_0005"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001385967.1"
                     /db_xref="GI:153937594"
                     /db_xref="GeneID:5398732"
                     /db_xref="Pathema:CLC_0005"
                     /translation="MFLHLGENVVVPIKDVIGIFDMETSMYSSDTIQFLRLAEEDGFV
                     ERITKEKPKSFVIAEVDKKSKIYLSPISSATLTKRTKVLYNEL"
     gene            4403..6316
                     /gene="gyrB"
                     /locus_tag="CLC_0006"
                     /db_xref="GeneID:5399484"
                     /db_xref="Pathema:CLC_0006"
     CDS             4403..6316
                     /gene="gyrB"
                     /locus_tag="CLC_0006"
                     /EC_number="5.99.1.3"
                     /note="negatively supercoils closed circular
                     double-stranded DNA"
                     /codon_start=1
                     /transl_table=11
                     /product="DNA gyrase subunit B"
                     /protein_id="YP_001385968.1"
                     /db_xref="GI:153936801"
                     /db_xref="GeneID:5399484"
                     /db_xref="Pathema:CLC_0006"
                     /translation="MSQENKQVYDESQIQVLEGLEAVRKRPGMYIGSTSLRGLHHLVY
                     EIVDNSIDEALAGFCTHIEVFIHKDNSITVVDDGRGMPVGMHSKVKKPAVEVIMTILH
                     AGGKFGGGGYKVSGGLHGVGASVVNALSEQCEVEVRREGHIWKQKFERGITKTGLDIV
                     GDTEDHGTKIYFKPDIEIFDELEFEYDTLAHRLRELAFLNKGIKISLTDERYDKKEMF
                     HYEGGLRSFVLYLNRNKEKLHQQPIYVDENKDGCIVEIAMQYNDGYAENIFSFANNID
                     TIEGGTHLAGFKSALTRVINDYARKFNYLKDTDKNLSGDDVREGLTAVISVKLTDPQF
                     EGQTKTKLGNGEVRGIVDTIVGQSIGSFLEENPNVGKIIIEKGLSASRAREAAKRARE
                     LTRRKSILESTSLPGKLSDCSSKDPSLCEIYLVEGDSAGGSAKQGRNREFQAILPLKG
                     KIMNVEKQRLDKILASDEIRAMITAFGAGIGKEFDIDKIRYNRIIIMTDADVDGAHIR
                     TLLLTFFYRYMKELIEEGHVYIAQPPLYRIYKAKKEIYVYSDPELDAALLELGGKDTN
                     TNIQRYKGLGEMNPEQLWETTMDPEHRTLLQVTVEDAMEADEIFTILMGTKVEPRRDF
                     IESNADKVVNLDI"
     misc_feature    4406..6313
                     /gene="gyrB"
                     /locus_tag="CLC_0006"
                     /note="DNA gyrase subunit B; Validated; Region: gyrB;
                     PRK05644"
                     /db_xref="CDD:235542"
     misc_feature    4517..>4678
                     /gene="gyrB"
                     /locus_tag="CLC_0006"
                     /note="Histidine kinase-like ATPases; This family includes
                     several ATP-binding proteins for example: histidine
                     kinase, DNA gyrase B, topoisomerases, heat shock protein
                     HSP90, phytochrome-like ATPases and DNA mismatch repair
                     proteins; Region: HATPase_c; cd00075"
                     /db_xref="CDD:238030"
     misc_feature    4547..4549
                     /gene="gyrB"
                     /locus_tag="CLC_0006"
                     /note="Mg2+ binding site [ion binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    order(4634..4636,4640..4642)
                     /gene="gyrB"
                     /locus_tag="CLC_0006"
                     /note="G-X-G motif; other site"
                     /db_xref="CDD:238030"
     misc_feature    5066..5530
                     /gene="gyrB"
                     /locus_tag="CLC_0006"
                     /note="TopoIIA_Trans_DNA_gyrase: Transducer domain, having
                     a ribosomal S5 domain 2-like fold, of the type found in
                     proteins of the type IIA family of DNA topoisomerases
                     similar to the B subunits of E. coli DNA gyrase and E.
                     coli Topoisomerase IV which are; Region:
                     TopoII_Trans_DNA_gyrase; cd00822"
                     /db_xref="CDD:238419"
     misc_feature    5219..5221
                     /gene="gyrB"
                     /locus_tag="CLC_0006"
                     /note="anchoring element; other site"
                     /db_xref="CDD:238419"
     misc_feature    order(5393..5395,5402..5407,5411..5413)
                     /gene="gyrB"
                     /locus_tag="CLC_0006"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:238419"
     misc_feature    order(5411..5413,5417..5419)
                     /gene="gyrB"
                     /locus_tag="CLC_0006"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:238419"
     misc_feature    5660..6001
                     /gene="gyrB"
                     /locus_tag="CLC_0006"
                     /note="TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM)
                     nucleotidyl transferase/hydrolase domain of the type found
                     in proteins of the type IIA family of DNA topoisomerases
                     similar to the Escherichia coli GyrB subunit. TopoIIA
                     enzymes cut both strands of the...; Region:
                     TOPRIM_TopoIIA_GyrB; cd03366"
                     /db_xref="CDD:173786"
     misc_feature    order(5678..5683,5690..5692,5897..5899,5903..5905,
                     5909..5911)
                     /gene="gyrB"
                     /locus_tag="CLC_0006"
                     /note="active site"
                     /db_xref="CDD:173786"
     misc_feature    order(5678..5680,5897..5899)
                     /gene="gyrB"
                     /locus_tag="CLC_0006"
                     /note="putative metal-binding site [ion binding]; other
                     site"
                     /db_xref="CDD:173786"
     misc_feature    6089..6280
                     /gene="gyrB"
                     /locus_tag="CLC_0006"
                     /note="DNA gyrase B subunit, carboxyl terminus; Region:
                     DNA_gyraseB_C; pfam00986"
                     /db_xref="CDD:201537"
     gene            6342..8867
                     /gene="gyrA"
                     /locus_tag="CLC_0007"
                     /db_xref="GeneID:5400142"
                     /db_xref="Pathema:CLC_0007"
     CDS             6342..8867
                     /gene="gyrA"
                     /locus_tag="CLC_0007"
                     /EC_number="5.99.1.3"
                     /note="negatively supercoils closed circular
                     double-stranded DNA"
                     /codon_start=1
                     /transl_table=11
                     /product="DNA gyrase subunit A"
                     /protein_id="YP_001385969.1"
                     /db_xref="GI:153935617"
                     /db_xref="GeneID:5400142"
                     /db_xref="Pathema:CLC_0007"
                     /translation="MLNEGKILPVDVSKEMKKCYIDYAMSVIAGRALPDVRDGLKPVH
                     RRIIYSMQGLGLAPEKGYRKCARIVGDVLGKYHPHGDTAVYEALVRMAQNFSIRYTLV
                     DGHGNFGSVDGDGAAAMRYTEAKMSKISMELIKDINKNTVDFIPNFDGEEEEPSVLPS
                     RFPNLLVNGSSGIAVGMATNIPPHNLTEVIDGIIMLIENEDVNILDLMTKIKGPDFPT
                     SGLIVGTRGIREAYETGRGKVIIRAKAEIEEEKGKNKIIVTEIPYQVNKARLIENMAN
                     LVKDKKINGISDLRDESDRDGMRIVIELKRDANPNIVLNQLYKHTKLQDTFGIIMLAL
                     VNNQPQILNLKEILVNYVEFQKEVIRRRTRFDLDKALARAHILEGLRIALDHIDEVIK
                     LIRASKNTAEAKEGLMNNFNLSEKQAQAILDMKLQRLTGLEREKIEEEYKELMEKISY
                     FREILDKEELVLSIIKEELIEIKNKYGDERKTEIVKGEHDIDIEDLIEDKKVIITLTH
                     GGYIKRLDMDTYSSQKRGGKGIQATSTKQDDFIENMFVTSTHSTILFFTNRGKVYKLK
                     AYEIPEAGRTAKGTNIVNIIPIENNEKIQTVIGLKDIDDMKHFVMCTRNGIIKKTEIK
                     KYSSIRKGGLNAINLREDDELIDVKMTKGNNEIIIVTQNGYCIRFNEEDVRPMGRVAT
                     GVKGITLREDDKAVSMEVVLEDEALLSISENGFGKRTDIEEYPIHRRGGKGVITYKIT
                     DKTGPIVGARFIKEDDELMLVNSGDVAIRINVSEISKTSRNAMGVKLMRTSEEEKIVA
                     IAKIKSEDIIEEEILNEENLNEENLNEENLNEENLNEENLNEE"
     misc_feature    6348..8732
                     /gene="gyrA"
                     /locus_tag="CLC_0007"
                     /note="DNA gyrase subunit A; Validated; Region: PRK05560"
                     /db_xref="CDD:235502"
     misc_feature    6429..7709
                     /gene="gyrA"
                     /locus_tag="CLC_0007"
                     /note="DNA Topoisomerase, subtype IIA; domain A';
                     bacterial DNA topoisomerase IV (C subunit, ParC),
                     bacterial DNA gyrases (A subunit, GyrA),mammalian DNA
                     toposiomerases II. DNA topoisomerases are essential
                     enzymes that regulate the conformational changes...;
                     Region: TOP4c; cd00187"
                     /db_xref="CDD:238111"
     misc_feature    order(6429..6509,6522..6671,6675..6731,6735..6806,
                     6813..6815)
                     /gene="gyrA"
                     /locus_tag="CLC_0007"
                     /note="CAP-like domain; other site"
                     /db_xref="CDD:238111"
     misc_feature    6702..6704
                     /gene="gyrA"
                     /locus_tag="CLC_0007"
                     /note="active site"
                     /db_xref="CDD:238111"
     misc_feature    order(7494..7502,7509..7520,7551..7556,7596..7646)
                     /gene="gyrA"
                     /locus_tag="CLC_0007"
                     /note="primary dimer interface [polypeptide binding];
                     other site"
                     /db_xref="CDD:238111"
     misc_feature    7854..7985
                     /gene="gyrA"
                     /locus_tag="CLC_0007"
                     /note="DNA gyrase C-terminal domain, beta-propeller;
                     Region: DNA_gyraseA_C; pfam03989"
                     /db_xref="CDD:217832"
     misc_feature    7998..>8078
                     /gene="gyrA"
                     /locus_tag="CLC_0007"
                     /note="DNA gyrase C-terminal domain, beta-propeller;
                     Region: DNA_gyraseA_C; pfam03989"
                     /db_xref="CDD:217832"
     misc_feature    8160..8297
                     /gene="gyrA"
                     /locus_tag="CLC_0007"
                     /note="DNA gyrase C-terminal domain, beta-propeller;
                     Region: DNA_gyraseA_C; pfam03989"
                     /db_xref="CDD:217832"
     misc_feature    8304..8444
                     /gene="gyrA"
                     /locus_tag="CLC_0007"
                     /note="DNA gyrase C-terminal domain, beta-propeller;
                     Region: DNA_gyraseA_C; pfam03989"
                     /db_xref="CDD:217832"
     misc_feature    8460..8600
                     /gene="gyrA"
                     /locus_tag="CLC_0007"
                     /note="DNA gyrase C-terminal domain, beta-propeller;
                     Region: DNA_gyraseA_C; pfam03989"
                     /db_xref="CDD:217832"
     misc_feature    8607..8732
                     /gene="gyrA"
                     /locus_tag="CLC_0007"
                     /note="DNA gyrase C-terminal domain, beta-propeller;
                     Region: DNA_gyraseA_C; pfam03989"
                     /db_xref="CDD:217832"
     gene            9282..10783
                     /gene="rrsA"
                     /locus_tag="CLC_0008"
                     /db_xref="GeneID:5399263"
                     /db_xref="Pathema:CLC_0008"
     rRNA            9282..10783
                     /gene="rrsA"
                     /locus_tag="CLC_0008"
                     /product="16S ribosomal RNA"
                     /db_xref="GeneID:5399263"
                     /db_xref="Pathema:CLC_0008"
     gene            11004..13905
                     /gene="rrlA"
                     /locus_tag="CLC_0011"
                     /db_xref="GeneID:5401568"
                     /db_xref="Pathema:CLC_0011"
     rRNA            11004..13905
                     /gene="rrlA"
                     /locus_tag="CLC_0011"
                     /product="23S ribosomal RNA"
                     /db_xref="GeneID:5401568"
                     /db_xref="Pathema:CLC_0011"
     gene            13997..14113
                     /gene="rrfA"
                     /locus_tag="CLC_0012"
                     /db_xref="GeneID:5401529"
                     /db_xref="Pathema:CLC_0012"
     rRNA            13997..14113
                     /gene="rrfA"
                     /locus_tag="CLC_0012"
                     /product="5S ribosomal RNA"
                     /db_xref="GeneID:5401529"
                     /db_xref="Pathema:CLC_0012"
     gene            14122..14198
                     /locus_tag="CLC_0013"
                     /db_xref="GeneID:5399670"
     tRNA            14122..14198
                     /locus_tag="CLC_0013"
                     /product="tRNA-Met"
                     /db_xref="GeneID:5399670"
     gene            14202..14277
                     /locus_tag="CLC_0015"
                     /db_xref="GeneID:5399981"
     tRNA            14202..14277
                     /locus_tag="CLC_0015"
                     /product="tRNA-Ala"
                     /db_xref="GeneID:5399981"
     gene            14442..14894
                     /locus_tag="CLC_0017"
                     /db_xref="GeneID:5398406"
                     /db_xref="Pathema:CLC_0017"
     CDS             14442..14894
                     /locus_tag="CLC_0017"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001385970.1"
                     /db_xref="GI:153934873"
                     /db_xref="GeneID:5398406"
                     /db_xref="Pathema:CLC_0017"
                     /translation="MEYEDIVYINMHLDNEELKIFNKLSISEQKHSIKVAYDIEKLYE
                     KGKYNLTKDEFIKVALLHDIGKLNYKVDIIKKSIIVIMDRITNSRIKKFQNIKSIYVH
                     YNHPYLGYCILKQYNKYSEKMLYLIKNHHNENIINKELSLLIYSDNLN"
     gene            14910..15431
                     /locus_tag="CLC_0018"
                     /db_xref="GeneID:5399287"
                     /db_xref="Pathema:CLC_0018"
     CDS             14910..15431
                     /locus_tag="CLC_0018"
                     /note="identified by match to protein family HMM PF02829;
                     match to protein family HMM PF08279"
                     /codon_start=1
                     /transl_table=11
                     /product="transcriptional regulator"
                     /protein_id="YP_001385971.1"
                     /db_xref="GI:153937121"
                     /db_xref="GeneID:5399287"
                     /db_xref="Pathema:CLC_0018"
                     /translation="MNSIERRKNIENMLMKNNKPIKGSEMGQKLGVTRQVIVKDIAIL
                     RASGKNIIATPEGYLIPNENKQLIRKIIAVCHDSKDIKDELEVIIKFGGIVEDVVVEH
                     PIYGEIKAMLMIKSMYDIDNFIKNIQNNKAEPLLILTGGIHLHTISSDNEDIMNKIIE
                     ELNQKNYLVDEEV"
     misc_feature    14922..15416
                     /locus_tag="CLC_0018"
                     /note="Predicted small molecule binding protein (contains
                     3H domain) [General function prediction only]; Region:
                     COG1827"
                     /db_xref="CDD:224740"
     misc_feature    14925..15083
                     /locus_tag="CLC_0018"
                     /note="HTH domain; Region: HTH_11; pfam08279"
                     /db_xref="CDD:116863"
     misc_feature    15123..15416
                     /locus_tag="CLC_0018"
                     /note="3H domain; Region: 3H; pfam02829"
                     /db_xref="CDD:202419"
     gene            15433..16596
                     /locus_tag="CLC_0019"
                     /db_xref="GeneID:5399101"
                     /db_xref="Pathema:CLC_0019"
     CDS             15433..16596
                     /locus_tag="CLC_0019"
                     /note="identified by match to protein family HMM PF00037;
                     match to protein family HMM PF04015"
                     /codon_start=1
                     /transl_table=11
                     /product="(Fe-S)-binding protein"
                     /protein_id="YP_001385972.1"
                     /db_xref="GI:153936038"
                     /db_xref="GeneID:5399101"
                     /db_xref="Pathema:CLC_0019"
                     /translation="MDKVALLKCDEYDLEKVEKTIRNGFELLGGNSFLNKLIPYNSKV
                     LLKPNMLSIENEGSPVVTNSVVFEAVIRILRDYSNNISFGDSPGFGDSKKAAEKSGLL
                     NIAKKYNIEFKDFKESINVSCDNSILCRSWTVAKAAYETDVLITLPKLKTHAMAYFTG
                     AVKNQFGCIPGTLKATWHTRMPNANNFCKMLLDLNTLLETDFAILDGIIAMEGNGPKN
                     GTPYNLNTIIMGDSLTAVDSVAVKIIGYDNPLDIPVLKEAYDSNWGSVFLKDIDILGE
                     KIDSMVVDNFKLCREGGDFYFINPKVTNFLKDIIAPDPTLIKEKCIGCNRCAEVCPEK
                     PYVIDMIKKGGKKIPVWNMKKCIRCFCCQELCPKGAIETKYSFIGRFLNRDGR"
     misc_feature    15439..16206
                     /locus_tag="CLC_0019"
                     /note="Uncharacterized conserved protein [Function
                     unknown]; Region: COG2006"
                     /db_xref="CDD:224917"
     misc_feature    15559..16164
                     /locus_tag="CLC_0019"
                     /note="Domain of unknown function (DUF362); Region:
                     DUF362; pfam04015"
                     /db_xref="CDD:217844"
     misc_feature    <16378..16548
                     /locus_tag="CLC_0019"
                     /note="RPB11 and RPB3 subunits of RNA polymerase; Region:
                     RNAP_RPB11_RPB3; cl11409"
                     /db_xref="CDD:245605"
     misc_feature    16390..16545
                     /locus_tag="CLC_0019"
                     /note="4Fe-4S dicluster domain; Region: Fer4_9; pfam13187"
                     /db_xref="CDD:221966"
     gene            16601..19282
                     /locus_tag="CLC_0020"
                     /db_xref="GeneID:5399006"
                     /db_xref="Pathema:CLC_0020"
     CDS             16601..19282
                     /locus_tag="CLC_0020"
                     /note="identified by match to protein family HMM PF03699"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001385973.1"
                     /db_xref="GI:153937022"
                     /db_xref="GeneID:5399006"
                     /db_xref="Pathema:CLC_0020"
                     /translation="MKNKKALFIPLFIIILFIAFFNKIINFIINIKWFKEVNYLAVYF
                     TKMRAIIILMIPIFIIFFISIWMYYKSLIINKNKSVVDIGLNKNNYGKKLFFIFNFIV
                     SIFLAYIFSSSYWYRILQFNNSVDFNVKDPIFFKDVSFYIFKLPLFESLYKVIISLLL
                     FLVITTFIAYFILEAKYKIQSKKDINLKNINHGIKSFAGKQLAIVSGLIILFISFGHL
                     IKIWNLVYSSNGVSFGASYTDVHATLLFYKIIVVITLISSIVTLLSIVKGKFKPVSIC
                     IGITIFLIVSQNIASFLVQNFIVKSNEKTLEQPYIKNNIDLTRKAFALDDIEIRDFDI
                     KNDLQKQDITDNKASIDNIRINSFKPTLEFYNQVQIIRYYYTFNDIDIDRYNINGKYN
                     QVFLAAREIDTDALNPNTWQNRHLIYTHGFGAVMNKVNSVTSEGQPDFVIKDIPPYNK
                     TNIKLANPRIYFGEKTNDYVIVNTKINEFDYPKEDSNKTNKYNGHAGIKMSFINRLLF
                     AINKKDINFLLSKDIKKDSKIIINRNIVERAKKIAPFLTYDSDPYMVIYNGKIYWIID
                     AYTTTNRYPYSEPYDSINYIRNSAKVVIDSVDGDINFYITDKKDPIVNNYAKIFKGLF
                     KEEKDAPKEIREHFRYPKDLFSIQSKVLGKYHVKDPGVFYNGEDLWEVSKDQKHVEGE
                     TNTNDAPYIIMKLPDQNKEEMVLLNYFNVMKKDNMIALFGARMDGEQYGKKILYKLPS
                     DKTVYSPYLFKQKINQDTNISKELSLWNREGSKVQYGDTIILPIKNSLLYIEPLYLRA
                     SGKNSIPEMKRVILSYNDKLVLSSSIQEGIKEIFNSKDNKINDKNEKDSTKTIDDSKL
                     KKAQEYYNKAIEAQKNGDWTKYGENINELGNILNSIK"
     misc_feature    16706..19279
                     /locus_tag="CLC_0020"
                     /note="hypothetical protein; Validated; Region: PRK00068"
                     /db_xref="CDD:234609"
     misc_feature    16706..19273
                     /locus_tag="CLC_0020"
                     /note="Uncharacterized conserved protein [Function
                     unknown]; Region: COG1615"
                     /db_xref="CDD:224531"
     gene            19419..20195
                     /locus_tag="CLC_0021"
                     /db_xref="GeneID:5399859"
                     /db_xref="Pathema:CLC_0021"
     CDS             19419..20195
                     /locus_tag="CLC_0021"
                     /note="identified by match to protein family HMM PF03734"
                     /codon_start=1
                     /transl_table=11
                     /product="ErfK/YbiS/YcfS/YnhG family protein"
                     /protein_id="YP_001385974.1"
                     /db_xref="GI:153937535"
                     /db_xref="GeneID:5399859"
                     /db_xref="Pathema:CLC_0021"
                     /translation="MKFKKSVYIVVLTLILLFIPCFIHTKKDVSTTNNLDNKTKEINK
                     SEVDRNEMSVFSSNTCFKKTYYINKNKVPVYKNFDCNSEVLYYLYEDDIIVSYKEQNG
                     YIFCEEGNLGRKGWIKKNKENLKGILHKNTEYKVDVDLIDQKIRVYKNDKIIKNIKCS
                     TGVIGKQDTETPLGIFYITNKGKYFYSNKYNQGGRYYIKFFANYLIHSIPVDKNGNII
                     EEEKDKLGFPTSHGCIRVPMEDSKWLYRNIPNKSLIIIHY"
     misc_feature    <19791..20192
                     /locus_tag="CLC_0021"
                     /note="Uncharacterized protein conserved in bacteria
                     [Function unknown]; Region: ErfK; COG1376"
                     /db_xref="CDD:224294"
     misc_feature    19815..20186
                     /locus_tag="CLC_0021"
                     /note="L,D-transpeptidase catalytic domain; Region: YkuD;
                     pfam03734"
                     /db_xref="CDD:217702"
     gene            20220..21617
                     /locus_tag="CLC_0022"
                     /db_xref="GeneID:5400120"
                     /db_xref="Pathema:CLC_0022"
     CDS             20220..21617
                     /locus_tag="CLC_0022"
                     /note="identified by match to protein family HMM PF01266;
                     match to protein family HMM PF04324"
                     /codon_start=1
                     /transl_table=11
                     /product="oxidoreductase, FAD dependent"
                     /protein_id="YP_001385975.1"
                     /db_xref="GI:153935047"
                     /db_xref="GeneID:5400120"
                     /db_xref="Pathema:CLC_0022"
                     /translation="MDYDVMILGGGIIGCALAYELSKYSLNIALIEKDYDIADDVAFI
                     NSSVVYDGVECEDDLAANLELNGNKLMEDIAKKFKIPFKKTGSLIIAQNDNEVYNIEN
                     MYKKALKRGIKNIEVLTKDEVEKIEPNLNIDFKKALYSSNTASIAPFDLAISYGEIAF
                     DNGVNFKLEEQVLEIQKLSKGYKIITNKNKFNCNIVINTTPDENFGIYSDTKRNYKKS
                     NLNYLLIEKNSIKEFNNIVVKLGTNENIKKILAVPTVQGSMVLAVDTYEKINYKNTLD
                     VSALILDEINEMDINNFYQFPYYDDSIVIDDSLIDKGYIKVIVNHYGQVTMTPYIAKI
                     VTETIVSNIKCVLKKEFIDKRRDYYKFNELSLEERNKIINMDKRYGKIICACNKVTEG
                     EIIDAIRRPLGARTLEGIKRRTGAAFGSCQGAYCLNKVVSILARETNKFMTDIVKDSK
                     NSKIIPCRIKEFDTI"
     misc_feature    20220..21401
                     /locus_tag="CLC_0022"
                     /note="Predicted dehydrogenase [General function
                     prediction only]; Region: COG0579"
                     /db_xref="CDD:223652"
     misc_feature    20220..>20849
                     /locus_tag="CLC_0022"
                     /note="hydroxyglutarate oxidase; Provisional; Region:
                     PRK11728"
                     /db_xref="CDD:183292"
     misc_feature    21360..21533
                     /locus_tag="CLC_0022"
                     /note="BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD;
                     pfam04324"
                     /db_xref="CDD:218027"
     gene            21634..21987
                     /locus_tag="CLC_0023"
                     /db_xref="GeneID:5398996"
                     /db_xref="Pathema:CLC_0023"
     CDS             21634..21987
                     /locus_tag="CLC_0023"
                     /note="identified by match to protein family HMM PF07892"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001385976.1"
                     /db_xref="GI:153934720"
                     /db_xref="GeneID:5398996"
                     /db_xref="Pathema:CLC_0023"
                     /translation="MLREFICNGCNKKCIISLYNSNYNTIKGNQCNLGIDYAKNYVNN
                     TKDIFTTLVRIKGSKYNVLPVKSSEPIEKSLWIECSKALSRLYVGYPIEIGDVICKNI
                     LNTGVDIIAIKNINE"
     misc_feature    21733..21972
                     /locus_tag="CLC_0023"
                     /note="Protein of unknown function (DUF1667); Region:
                     DUF1667; pfam07892"
                     /db_xref="CDD:149133"
     gene            22357..23637
                     /gene="serS-1"
                     /locus_tag="CLC_0024"
                     /db_xref="GeneID:5399291"
                     /db_xref="Pathema:CLC_0024"
     CDS             22357..23637
                     /gene="serS-1"
                     /locus_tag="CLC_0024"
                     /EC_number="6.1.1.11"
                     /note="catalyzes a two-step reaction, first charging a
                     serine molecule by linking its carboxyl group to the
                     alpha-phosphate of ATP, followed by transfer of the
                     aminoacyl-adenylate to its tRNA"
                     /codon_start=1
                     /transl_table=11
                     /product="seryl-tRNA synthetase"
                     /protein_id="YP_001385977.1"
                     /db_xref="GI:153937253"
                     /db_xref="GeneID:5399291"
                     /db_xref="Pathema:CLC_0024"
                     /translation="MLDLKRIRNNSNEIKESLNNRGEKFDVTVIDEVLKLDEERRNIL
                     VKVEVLKSKRNQVSSEVPKLKKEGKDVSNIVAEMKNLSEEIKGFDTTLAKIDEKIQYI
                     MLRIPNIPNPQVPDGDTDEDNIEIRNWSEPTKFDFEPKAHWDIGSNLNILDFERAGKV
                     TGSRFTFYKGLGARLERSLISYFLDTHTEKHGYTEILPPYMVNRTSMIGTGQLPKFEE
                     DAFKISEDDYFLIPTAEVPVTNLYRDEILKGDELPLKHVAYSACFRSEAGSAGRDTRG
                     LVRQHQFNKVELVKFTKPEQSYEELEKLTNDAETVLKELGIPYRVVRICKGDLGFTAA
                     LKYDLEVWMPSYNRYVEISSCSNFEDFQARRANIRYKEDAKAKPQYVHTLNGSGVAIG
                     RTVAAILENYQNEDGSVTIPEVLRPYMGGKEAIK"
     misc_feature    22357..23634
                     /gene="serS-1"
                     /locus_tag="CLC_0024"
                     /note="seryl-tRNA synthetase; Provisional; Region:
                     PRK05431"
                     /db_xref="CDD:235461"
     misc_feature    22357..22686
                     /gene="serS-1"
                     /locus_tag="CLC_0024"
                     /note="Seryl-tRNA synthetase N-terminal domain; Region:
                     Seryl_tRNA_N; pfam02403"
                     /db_xref="CDD:217020"
     misc_feature    22720..23613
                     /gene="serS-1"
                     /locus_tag="CLC_0024"
                     /note="Seryl-tRNA synthetase (SerRS) class II core
                     catalytic domain. SerRS is responsible for the attachment
                     of serine to the 3' OH group of ribose of the appropriate
                     tRNA. This domain It is primarily responsible for
                     ATP-dependent formation of the enzyme...; Region:
                     SerRS_core; cd00770"
                     /db_xref="CDD:238393"
     misc_feature    order(22822..22839,22846..22866,22876..22878,22882..22884,
                     22888..22890,22897..22899,22936..22947,22951..22959,
                     22963..22965,23017..23022,23026..23028,23038..23040,
                     23065..23067,23077..23079,23089..23091,23137..23139,
                     23200..23202,23608..23613)
                     /gene="serS-1"
                     /locus_tag="CLC_0024"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:238393"
     misc_feature    order(22843..22845,23053..23055,23059..23061,23146..23148,
                     23152..23154,23170..23172,23179..23181,23188..23190,
                     23194..23196,23203..23205,23209..23211,23215..23217,
                     23407..23418,23509..23511,23515..23517,23533..23535)
                     /gene="serS-1"
                     /locus_tag="CLC_0024"
                     /note="active site"
                     /db_xref="CDD:238393"
     misc_feature    22936..22959
                     /gene="serS-1"
                     /locus_tag="CLC_0024"
                     /note="motif 1; other site"
                     /db_xref="CDD:238393"
     misc_feature    23143..23154
                     /gene="serS-1"
                     /locus_tag="CLC_0024"
                     /note="motif 2; other site"
                     /db_xref="CDD:238393"
     misc_feature    order(23518..23526,23533..23535)
                     /gene="serS-1"
                     /locus_tag="CLC_0024"
                     /note="motif 3; other site"
                     /db_xref="CDD:238393"
     gene            23913..24003
                     /locus_tag="CLC_0025"
                     /db_xref="GeneID:5399147"
     tRNA            23913..24003
                     /locus_tag="CLC_0025"
                     /product="tRNA-Ser"
                     /db_xref="GeneID:5399147"
     gene            24024..24114
                     /locus_tag="CLC_0027"
                     /db_xref="GeneID:5399347"
     tRNA            24024..24114
                     /locus_tag="CLC_0027"
                     /product="tRNA-Ser"
                     /db_xref="GeneID:5399347"
     gene            24421..24511
                     /locus_tag="CLC_0029"
                     /db_xref="GeneID:5399855"
     tRNA            24421..24511
                     /locus_tag="CLC_0029"
                     /product="tRNA-Ser"
                     /db_xref="GeneID:5399855"
     gene            24532..24622
                     /locus_tag="CLC_0031"
                     /db_xref="GeneID:5400090"
     tRNA            24532..24622
                     /locus_tag="CLC_0031"
                     /product="tRNA-Ser"
                     /db_xref="GeneID:5400090"
     gene            24707..24783
                     /locus_tag="CLC_0033"
                     /db_xref="GeneID:5399853"
     tRNA            24707..24783
                     /locus_tag="CLC_0033"
                     /product="tRNA-Arg"
                     /db_xref="GeneID:5399853"
     gene            complement(24819..25705)
                     /gene="psd-1"
                     /locus_tag="CLC_0035"
                     /note="phosphatidylserine decarboxylase, authentic
                     frameshift; this gene contains a frame shift which is not
                     the result of sequencing error; identified by similarity
                     to SP:Q46192"
                     /pseudo
                     /db_xref="GeneID:5398900"
                     /db_xref="Pathema:CLC_0035"
     gene            26616..26978
                     /locus_tag="CLC_0037"
                     /db_xref="GeneID:5399488"
                     /db_xref="Pathema:CLC_0037"
     CDS             26616..26978
                     /locus_tag="CLC_0037"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001385979.1"
                     /db_xref="GI:153936471"
                     /db_xref="GeneID:5399488"
                     /db_xref="Pathema:CLC_0037"
                     /translation="MSIKKLVLTGILTLSISAPVFAAWNYASITLPRTGAWATISRGA
                     SGASQKTQVTRNAYTVNSRIINNGGTVLSGWQSHSSGTGTIRTHYSGAKKGDSVKAQF
                     KTNATNVRTTTATIGWQP"
     gene            27051..27899
                     /locus_tag="CLC_0038"
                     /db_xref="GeneID:5400988"
                     /db_xref="Pathema:CLC_0038"
     CDS             27051..27899
                     /locus_tag="CLC_0038"
                     /note="identified by match to protein family HMM PF00005"
                     /codon_start=1
                     /transl_table=11
                     /product="antibiotic ABC transporter ATP-binding protein"
                     /protein_id="YP_001385980.1"
                     /db_xref="GI:153936191"
                     /db_xref="GeneID:5400988"
                     /db_xref="Pathema:CLC_0038"
                     /translation="MLENKTVLSVKNLSKSLGNKQVLKNVNLDLERGDIIGITGKNGS
                     GKTTLLRIIIGLFYASSGDVIIEGKKLIPGFLGNLPTNVSALIENPNFLPQFTGFQNL
                     KILASIRNKISDEDIRNTMNLVGLSPSNKKNVSKYSLGMKQRLGIAQAIMENPDIILF
                     DEPTNALDSDGVKIFTDIVSKMSKSGTSFIMVSHKKEDIDALCNKVYRIENGELNVID
                     NHKEWKIVVNDLVDLENLLKIYPNGNIIERVDNHPCIIYKNDWKDVSQVHEILNKNKI
                     NTISIE"
     misc_feature    27069..27710
                     /locus_tag="CLC_0038"
                     /note="ABC-type antimicrobial peptide transport system,
                     ATPase component [Defense mechanisms]; Region: SalX;
                     COG1136"
                     /db_xref="CDD:224059"
     misc_feature    27072..27692
                     /locus_tag="CLC_0038"
                     /note="ATP-binding cassette transporter nucleotide-binding
                     domain; Region: ABC_ATPase; cl17201"
                     /db_xref="CDD:247755"
     misc_feature    27168..27191
                     /locus_tag="CLC_0038"
                     /note="Walker A/P-loop; other site"
                     /db_xref="CDD:213179"
     misc_feature    order(27177..27182,27186..27194,27312..27314,27531..27536,
                     27630..27632)
                     /locus_tag="CLC_0038"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:213179"
     misc_feature    27303..27314
                     /locus_tag="CLC_0038"
                     /note="Q-loop/lid; other site"
                     /db_xref="CDD:213179"
     misc_feature    27459..27488
                     /locus_tag="CLC_0038"
                     /note="ABC transporter signature motif; other site"
                     /db_xref="CDD:213179"
     misc_feature    27519..27536
                     /locus_tag="CLC_0038"
                     /note="Walker B; other site"
                     /db_xref="CDD:213179"
     misc_feature    27543..27554
                     /locus_tag="CLC_0038"
                     /note="D-loop; other site"
                     /db_xref="CDD:213179"
     misc_feature    27618..27638
                     /locus_tag="CLC_0038"
                     /note="H-loop/switch region; other site"
                     /db_xref="CDD:213179"
     gene            27908..28741
                     /locus_tag="CLC_0039"
                     /db_xref="GeneID:5398932"
                     /db_xref="Pathema:CLC_0039"
     CDS             27908..28741
                     /locus_tag="CLC_0039"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001385981.1"
                     /db_xref="GI:153936228"
                     /db_xref="GeneID:5398932"
                     /db_xref="Pathema:CLC_0039"
                     /translation="MNYFFIKQYFSLRWKRWLTIIPIIFFSAVLLKYLAPIDFLPANK
                     TLILKDYMFESLSYPFYILFVAPLLYCYLIYDIATKDYEGGYITFIISRIENRVSYFI
                     SKILLIIITANIYFFMNLFVLIIVGLIFRLPLQGECYSPILKTSYKLGLNIYSIFLIQ
                     YGIYFIGLIAIGISVLVISLLFNNGIYSMIFIVMCFIQSREAFFNNHKNLKWSLIGQL
                     ALSKHYPFCFSDSQVDPSYLSYMIGYTAYYSIKFYIAISLIAFLVGMLCINKINFNKK
                     M"
     gene            28753..29556
                     /locus_tag="CLC_0040"
                     /db_xref="GeneID:5401022"
                     /db_xref="Pathema:CLC_0040"
     CDS             28753..29556
                     /locus_tag="CLC_0040"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001385982.1"
                     /db_xref="GI:153935706"
                     /db_xref="GeneID:5401022"
                     /db_xref="Pathema:CLC_0040"
                     /translation="MKNLILNQIYSTKKNVVTSILLILFFNICQLISILNDGKLDKLE
                     VRPLDFFIKIYGGVHSKFFIFQYIQWIVVICTLLLIIENIINSYKGLDLMIINRSGFR
                     LKWWSSKIISLFLLNIIYIIAIIVIYKILSIIFLCPSNYKIWSTYSKIYYIDLYNSTI
                     NPDKVLFMCLCIMLTGFIAISTFFQTINEITNNNIKIFIVFIIIMVINGILHMNNLIP
                     RVLSPLNYPSILDITPNVGNYIKCIILNIVLIIFNTMVGSIFIIKKDIL"
     gene            29573..30385
                     /locus_tag="CLC_0041"
                     /db_xref="GeneID:5398944"
                     /db_xref="Pathema:CLC_0041"
     CDS             29573..30385
                     /locus_tag="CLC_0041"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001385983.1"
                     /db_xref="GI:153934746"
                     /db_xref="GeneID:5398944"
                     /db_xref="Pathema:CLC_0041"
                     /translation="MVNSFFKIELKRAFFRWKTFIAFIIFMAVFIHISYLDKLDIPNT
                     PTYLKYFFLENHNGFISYLKAMGFVNSYMAIVFPIIILLVVGDSLIEDVKTGFLQFYL
                     TRTDWKNYIRSKTIAVSLVSFMVTFIFQVCAFIYSMITHPFYIPRNIDAAPSYARGLY
                     MLNPYLYILLICIIFSLISIVIALFAIALSNRLKNSSQAILIPWILYLILGIGLNCID
                     SIYSFSPVFMCGPFIFERFYSGWEIILYWSVILFLSIYLGFKLFSKNFVFNK"
     gene            complement(30625..31512)
                     /gene="psd-2"
                     /locus_tag="CLC_0042"
                     /db_xref="GeneID:5401023"
                     /db_xref="Pathema:CLC_0042"
     CDS             complement(30625..31512)
                     /gene="psd-2"
                     /locus_tag="CLC_0042"
                     /EC_number="4.1.1.65"
                     /note="catalyzes the decarboxylaton of
                     phospatidyl-L-sering to phosphatidylethanolamine"
                     /codon_start=1
                     /transl_table=11
                     /product="phosphatidylserine decarboxylase"
                     /protein_id="YP_001385984.1"
                     /db_xref="GI:153937664"
                     /db_xref="GeneID:5401023"
                     /db_xref="Pathema:CLC_0042"
                     /translation="MIKYYNRKNKDYDIEKVAGEKYLNWTYSSPIGMNLLEVFIKKKF
                     FSKIYGFYCDRRLSHKKINKFINDFKIDMSLSENQSSNFKCFNDFFTRKLKKEARPIK
                     TDKNLLISPGDGKILAYENLNLNSVTEVKGINYSFYELINNDSLAKEYDNGTCLVLRL
                     CPTDYHRFHFIDNGICENTIKLKGFYYSVNPIALSKIPSVFCKNKREYSIFHSENFGD
                     IIFMEVGATCVGSIIQTYKPNTKILKGDEKGYFKFGGSTVILFFKKNTIKIDNDILNQ
                     SKLGYETSVVMGESIGIKK"
     misc_feature    complement(30628..31512)
                     /gene="psd-2"
                     /locus_tag="CLC_0042"
                     /note="phosphatidylserine decarboxylase; Provisional;
                     Region: PRK00723"
                     /db_xref="CDD:179097"
     gene            complement(31615..33213)
                     /locus_tag="CLC_0043"
                     /db_xref="GeneID:5401193"
                     /db_xref="Pathema:CLC_0043"
     CDS             complement(31615..33213)
                     /locus_tag="CLC_0043"
                     /note="identified by match to protein family HMM PF01163;
                     match to protein family HMM PF03109"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001385985.1"
                     /db_xref="GI:153937271"
                     /db_xref="GeneID:5401193"
                     /db_xref="Pathema:CLC_0043"
                     /translation="MYLNSVQRFKEIIKILAFYGFGHIVDSKFNEDKAPENLRKAFEE
                     LGPTFIKIGQILSTRPDILSAPYIKELSKLQDSVPEDNFSDINKIFFEEFNISIEDAF
                     LNFNRKPLASASISQVYSAKLHNNEEVIVKIQRPEIKEKMNMDLAILRKIFTLGKIKT
                     FDTLIDPKEAIDELINATNLELDFNNEKENIKKFKYFNKNLKCIYVPNTIDKYCSSKI
                     ITMEKIHGFKITDIKSLDKLNYDKKDVAHKLAISILKQIFEDGFFHGDPHPGNIFIYE
                     GKICYIDFGIMGTLSSDLKNYLNKAMVAVAFKDVDKLISVLLSIGIKKGYINKNNLFE
                     DINYLFDIYLSTPLKNIKMSTMLQEVFECANRNNISLPKELTMLIRSLIIIEGILEKI
                     DPNIQILDIAIPYVENNNKVNFFKNIDLDELILNSYKTAEDLSKIPTKTVQLLNSILN
                     GRSKIQLNVNNLDRSINELNKMINRIVFALIISSMIIGFSFILNSNIGPKFYDISIIG
                     ILGYLIAAFMGFWLLISIIKSGKL"
     misc_feature    complement(31999..33192)
                     /locus_tag="CLC_0043"
                     /note="2-polyprenylphenol 6-hydroxylase; Region: UbiB;
                     TIGR01982"
                     /db_xref="CDD:233667"
     misc_feature    complement(<31999..33108)
                     /locus_tag="CLC_0043"
                     /note="ABC1 family; Region: ABC1; cl17513"
                     /db_xref="CDD:248067"
     gene            complement(33289..33609)
                     /locus_tag="CLC_0044"
                     /db_xref="GeneID:5401659"
                     /db_xref="Pathema:CLC_0044"
     CDS             complement(33289..33609)
                     /locus_tag="CLC_0044"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001385986.1"
                     /db_xref="GI:153934830"
                     /db_xref="GeneID:5401659"
                     /db_xref="Pathema:CLC_0044"
                     /translation="MINEFKNILLAGIGSAAYTYEKASNLVDEMVQKGKITVNEGKEL
                     SQELKRTIDENKESKNSSEEKQLTREDIISIFNELNFVNKNDLNDINNKIKSLEDKIS
                     QLEK"
     misc_feature    complement(<33454..33609)
                     /locus_tag="CLC_0044"
                     /note="Uncharacterized conserved protein [Function
                     unknown]; Region: COG3937"
                     /db_xref="CDD:226447"
     gene            33794..33870
                     /locus_tag="CLC_0045"
                     /db_xref="GeneID:5400431"
     tRNA            33794..33870
                     /locus_tag="CLC_0045"
                     /product="tRNA-Arg"
                     /db_xref="GeneID:5400431"
     gene            34004..35542
                     /locus_tag="CLC_0046"
                     /db_xref="GeneID:5398815"
                     /db_xref="Pathema:CLC_0046"
     CDS             34004..35542
                     /locus_tag="CLC_0046"
                     /note="identified by match to protein family HMM PF00158;
                     match to protein family HMM PF02954"
                     /codon_start=1
                     /transl_table=11
                     /product="sensory box sigma-54 dependent transcriptional
                     regulator"
                     /protein_id="YP_001385987.1"
                     /db_xref="GI:153935787"
                     /db_xref="GeneID:5398815"
                     /db_xref="Pathema:CLC_0046"
                     /translation="MKLEIITEDRLGMVLDILNVLYNESMDIKSLEVFSKKIYIKINK
                     KISYNKNMIIKKIKNIKGVVRVKKIDILPYEKDEKKLFTIIDSLEEGVIFVNEKCQVE
                     VFNKYCENLFNTLKENAIRKHIKEILGQNQLILDALKMGKDYDNLQVFINNKDRKGMY
                     VSTARAIKDDKNKTIGFVILIKDLKETIEIVNSIKYKEDEAFKGIIGKSICIDNLKEI
                     CKSVAKTNSTVLICGESGTGKELFAKAIYKLSLRNNKNFVTVNCAGLQDNLIESELFG
                     YEAGSFTGAKSNGKEGFFKLADKGTIFLDEIGELPLNIQCKFLRVLQEGTIRKIGSTK
                     EEKIDVRIIAATNKNLEEMVLNGKFREDLYYRLNVVPIEIPPLRERKEDIQLLVDNFV
                     KALNKSLNKNIRYIDKKFINKLLKYNFPGNIRELQNIIERTMNLCSDNILSDKNLSIN
                     TNITLNNDSGALLLQDIVEKAEKCAIQKVMNEYKSLRKVGKVLGVSHTTVMNKIKKYG
                     IVCK"
     misc_feature    34004..35530
                     /locus_tag="CLC_0046"
                     /note="Transcriptional regulator of aromatic amino acids
                     metabolism [Transcription / Amino acid transport and
                     metabolism]; Region: TyrR; COG3283"
                     /db_xref="CDD:225821"
     misc_feature    34004..>34105
                     /locus_tag="CLC_0046"
                     /note="ACT domains are commonly involved in specifically
                     binding an amino acid or other small ligand leading to
                     regulation of the enzyme; Region: ACT; cl09141"
                     /db_xref="CDD:245020"
     misc_feature    34640..35131
                     /locus_tag="CLC_0046"
                     /note="The AAA+ (ATPases Associated with a wide variety of
                     cellular Activities) superfamily represents an ancient
                     group of ATPases belonging to the ASCE (for additional
                     strand, catalytic E) division of the P-loop NTPase fold.
                     The ASCE division also includes ABC; Region: AAA; cd00009"
                     /db_xref="CDD:99707"
     misc_feature    34700..34723
                     /locus_tag="CLC_0046"
                     /note="Walker A motif; other site"
                     /db_xref="CDD:99707"
     misc_feature    order(34703..34726,34916..34918,35042..35044)
                     /locus_tag="CLC_0046"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:99707"
     misc_feature    34904..34921
                     /locus_tag="CLC_0046"
                     /note="Walker B motif; other site"
                     /db_xref="CDD:99707"
     misc_feature    35099..35101
                     /locus_tag="CLC_0046"
                     /note="arginine finger; other site"
                     /db_xref="CDD:99707"
     gene            35702..36904
                     /gene="megL"
                     /locus_tag="CLC_0047"
                     /db_xref="GeneID:5398407"
                     /db_xref="Pathema:CLC_0047"
     CDS             35702..36904
                     /gene="megL"
                     /locus_tag="CLC_0047"
                     /EC_number="4.4.1.11"
                     /note="catalyzes the formation of methanethiol and
                     2-ocobutanoate from L-methionine"
                     /codon_start=1
                     /transl_table=11
                     /product="methionine gamma-lyase"
                     /protein_id="YP_001385988.1"
                     /db_xref="GI:153937734"
                     /db_xref="GeneID:5398407"
                     /db_xref="Pathema:CLC_0047"
                     /translation="MENIKKMGFATKAIHGGHIGDKQFGSLATPIYQTSTFIFDSAEQ
                     GGRRFAGEESGYIYSRLGNPTSTEVENKLALLECGEAAVVAASGMGAIAASLWSALKS
                     GDHVVASDTLYGCTFALLNHGLTRYGVEVTFVDVSNLDEVRNALKANTKVVYLETPAN
                     PTLKVTDIKQISNMVHENNKECLVFVDNTFCTPYIQRPLQLGADVVVHSATKYLNGHG
                     DVIAGFAVGKEEFINQVKLFGIKDMTGSVIGPFEAFLIIRGMKTLQLRMEKHCKNAME
                     VAKFLESHPAVKKVYYPGLESFEYYELAKKQMSLPGAMISFELKGGVEEGKVVMNNVK
                     LATLAVSLGDAETLIQHPASMTHSPYTAEERKEAGISDGLVRLSVGLEDVDDIISDLK
                     QALDLIVK"
     misc_feature    35702..36901
                     /gene="megL"
                     /locus_tag="CLC_0047"
                     /note="methionine gamma-lyase; Provisional; Region:
                     PRK06234"
                     /db_xref="CDD:168478"
     misc_feature    35774..36889
                     /gene="megL"
                     /locus_tag="CLC_0047"
                     /note="CGS_like: Cystathionine gamma-synthase is a PLP
                     dependent enzyme and catalyzes the committed step of
                     methionine biosynthesis. This pathway is unique to
                     microorganisms and plants, rendering the enzyme an
                     attractive target for the development of...; Region:
                     CGS_like; cd00614"
                     /db_xref="CDD:99738"
     misc_feature    order(35798..35809,35813..35818,35873..35875,35879..35881,
                     35957..35962,35966..35971,36038..36040,36053..36055,
                     36062..36064,36332..36334,36356..36358,36362..36364,
                     36410..36412,36446..36448,36452..36457,36692..36694)
                     /gene="megL"
                     /locus_tag="CLC_0047"
                     /note="homodimer interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:99738"
     misc_feature    order(35960..35968,36038..36040,36167..36169,36260..36262,
                     36326..36328,36332..36337,36362..36364)
                     /gene="megL"
                     /locus_tag="CLC_0047"
                     /note="substrate-cofactor binding pocket; other site"
                     /db_xref="CDD:99738"
     misc_feature    order(35960..35968,36038..36040,36260..36262,36269..36271,
                     36326..36328,36332..36337)
                     /gene="megL"
                     /locus_tag="CLC_0047"
                     /note="pyridoxal 5'-phosphate binding site [chemical
                     binding]; other site"
                     /db_xref="CDD:99738"
     misc_feature    36335..36337
                     /gene="megL"
                     /locus_tag="CLC_0047"
                     /note="catalytic residue [active]"
                     /db_xref="CDD:99738"
     gene            37028..37465
                     /locus_tag="CLC_0048"
                     /db_xref="GeneID:5400541"
                     /db_xref="Pathema:CLC_0048"
     CDS             37028..37465
                     /locus_tag="CLC_0048"
                     /note="identified by match to protein family HMM PF00383"
                     /codon_start=1
                     /transl_table=11
                     /product="cytidine/deoxycytidylate deaminase"
                     /protein_id="YP_001385989.1"
                     /db_xref="GI:153937691"
                     /db_xref="GeneID:5400541"
                     /db_xref="Pathema:CLC_0048"
                     /translation="MNDYIEYAIIEAKKALAIGEVPVGAIIVKENKIIAKSHNLKESL
                     KDPTAHAEILAIKEACNTIHNWRLKGCKMYVTLEPCAMCASAIIQSRISELHIGTFDP
                     VGGACGSVVNITNNSYLKNNLNIKWLYDDECSRIITNFFKNIR"
     misc_feature    37043..37363
                     /locus_tag="CLC_0048"
                     /note="Nucleoside deaminases include adenosine, guanine
                     and cytosine deaminases. These enzymes are Zn dependent
                     and catalyze the deamination of nucleosides. The zinc ion
                     in the active site plays a central role in the proposed
                     catalytic mechanism, activating a...; Region:
                     nucleoside_deaminase; cd01285"
                     /db_xref="CDD:238612"
     misc_feature    order(37094..37096,37142..37144,37175..37183,37265..37267,
                     37274..37276)
                     /locus_tag="CLC_0048"
                     /note="nucleoside/Zn binding site; other site"
                     /db_xref="CDD:238612"
     misc_feature    order(37169..37171,37184..37186,37196..37198,37268..37273,
                     37280..37285,37292..37297)
                     /locus_tag="CLC_0048"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:238612"
     misc_feature    order(37175..37183,37262..37267,37274..37276)
                     /locus_tag="CLC_0048"
                     /note="catalytic motif [active]"
                     /db_xref="CDD:238612"
     gene            37631..37720
                     /locus_tag="CLC_0049"
                     /db_xref="GeneID:5400280"
     tRNA            37631..37720
                     /locus_tag="CLC_0049"
                     /product="tRNA-Ser"
                     /db_xref="GeneID:5400280"
     gene            37844..37946
                     /gene="srpB"
                     /locus_tag="CLC_3700"
                     /db_xref="GeneID:8535594"
     ncRNA           37844..37946
                     /gene="srpB"
                     /locus_tag="CLC_3700"
                     /ncRNA_class="other"
                     /product="bacterial signal recognition particle RNA"
                     /db_xref="GeneID:8535594"
     gene            38110..39735
                     /gene="dnaX"
                     /locus_tag="CLC_0051"
                     /db_xref="GeneID:5400573"
                     /db_xref="Pathema:CLC_0051"
     CDS             38110..39735
                     /gene="dnaX"
                     /locus_tag="CLC_0051"
                     /EC_number="2.7.7.7"
                     /note="catalyzes the DNA-template-directed extension of
                     the 3'-end of a DNA strand; the tau chain serves as a
                     scaffold to help in the dimerizaton of the alpha,epsilon
                     and theta core complex; the gamma chain seems to interact
                     with the delta and delta' subunits to transfer the beta
                     subunit on the DNA"
                     /codon_start=1
                     /transl_table=11
                     /product="DNA polymerase III subunits gamma and tau"
                     /protein_id="YP_001385990.1"
                     /db_xref="GI:153935315"
                     /db_xref="GeneID:5400573"
                     /db_xref="Pathema:CLC_0051"
                     /translation="MGYTALYREWRPRTFKEVVGQKHITVTLKNQVIEKRIAHAYLFC
                     GTRGTGKTSTAKILSKAVNCLNPKDGEPCNECEICNKINSGTLMDVIEMDAASKRKLE
                     DIKEVIENVKYPPQEGKNKVYIMDEVHMLTQEAVNAFLKTLEEPPSNVIFILATTDPQ
                     KLPITILSRCQRFDFRRIRNEEIFERLRAIVSEQGIYADDKSLNLIARMSDGAMRDAL
                     SILDQVISTGDGKVEYDQVLDMLGLVTNENLLRITNSIIEKDVEKSMRIIEDIVLSGK
                     DIYNFIKDMITHLRNILMVKVSKNPNEILDMSSENIDLVKEQSEKIRIEEIMRNIKIL
                     QEAEQQSKWVKQNRIYLELAVLKMCKIEYDTSKEVILSRLNKIEELIKSGNIKLAINE
                     EKKKIEPKEFNLKREKESMQHSKIEKNSLEDYNKDSKLTVETVKKMWHDILEAFKARR
                     LMVLYAALVTANITDCKEGIITLNYNKQYSFNKKRLEKPENNKVVQEIFSEVLKEKIR
                     IIYIVEEKAKEENLPEEILKNTFGENILEIIDE"
     misc_feature    38110..39729
                     /gene="dnaX"
                     /locus_tag="CLC_0051"
                     /note="DNA polymerase III subunits gamma and tau;
                     Validated; Region: PRK05563"
                     /db_xref="CDD:235505"
     misc_feature    38164..38622
                     /gene="dnaX"
                     /locus_tag="CLC_0051"
                     /note="The AAA+ (ATPases Associated with a wide variety of
                     cellular Activities) superfamily represents an ancient
                     group of ATPases belonging to the ASCE (for additional
                     strand, catalytic E) division of the P-loop NTPase fold.
                     The ASCE division also includes ABC; Region: AAA; cd00009"
                     /db_xref="CDD:99707"
     misc_feature    38242..38265
                     /gene="dnaX"
                     /locus_tag="CLC_0051"
                     /note="Walker A motif; other site"
                     /db_xref="CDD:99707"
     misc_feature    order(38245..38268,38485..38487,38578..38580)
                     /gene="dnaX"
                     /locus_tag="CLC_0051"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:99707"
     misc_feature    38473..38490
                     /gene="dnaX"
                     /locus_tag="CLC_0051"
                     /note="Walker B motif; other site"
                     /db_xref="CDD:99707"
     misc_feature    38614..38616
                     /gene="dnaX"
                     /locus_tag="CLC_0051"
                     /note="arginine finger; other site"
                     /db_xref="CDD:99707"
     misc_feature    38803..39231
                     /gene="dnaX"
                     /locus_tag="CLC_0051"
                     /note="DNA polymerase III subunits gamma and tau domain
                     III; Region: DNA_pol3_gamma3; pfam12169"
                     /db_xref="CDD:152604"
     gene            39800..40141
                     /locus_tag="CLC_0052"
                     /db_xref="GeneID:5400028"
                     /db_xref="Pathema:CLC_0052"
     CDS             39800..40141
                     /locus_tag="CLC_0052"
                     /note="identified by match to protein family HMM PF02575;
                     match to protein family HMM TIGR00103"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001385991.1"
                     /db_xref="GI:153934643"
                     /db_xref="GeneID:5400028"
                     /db_xref="Pathema:CLC_0052"
                     /translation="MARGGFPNMGGANMNNLMKQAQKLQQDMEKMQGEMEKKEFSATV
                     GGGAVTAVANGKKQIVDIKIEPEVVDEDDIEMLEDLIMSACNEALKKAEEDTSSEVKR
                     LTGGMNLPGMF"
     misc_feature    39827..40138
                     /locus_tag="CLC_0052"
                     /note="hypothetical protein; Validated; Region: PRK00153"
                     /db_xref="CDD:234669"
     gene            40174..40770
                     /gene="recR"
                     /locus_tag="CLC_0053"
                     /db_xref="GeneID:5400973"
                     /db_xref="Pathema:CLC_0053"
     CDS             40174..40770
                     /gene="recR"
                     /locus_tag="CLC_0053"
                     /note="involved in a recombinational process of DNA
                     repair, independent of the recBC complex"
                     /codon_start=1
                     /transl_table=11
                     /product="recombination protein RecR"
                     /protein_id="YP_001385992.1"
                     /db_xref="GI:153937733"
                     /db_xref="GeneID:5400973"
                     /db_xref="Pathema:CLC_0053"
                     /translation="MDFYPIAIEKLIEEFAKLPGIGYKTAQRLTLYVLNLPKEEVKEF
                     SEALVKARGTIKYCSVCGNFTDKDPCAICSNPNRNKSIICVIEQPKDIMSMEKIREYN
                     GVYHVLHGNISPMAGRGPEDIKLKELIRRIDGSVNEVIVATNPNVEGEATAMYISKIL
                     KPLGVKVTRIAHGVPVGGDLEYADEVTLAKALEGRIEL"
     misc_feature    40180..40767
                     /gene="recR"
                     /locus_tag="CLC_0053"
                     /note="recombination protein RecR; Reviewed; Region: recR;
                     PRK00076"
                     /db_xref="CDD:234616"
     misc_feature    40288..40410
                     /gene="recR"
                     /locus_tag="CLC_0053"
                     /note="RecR protein; Region: RecR; pfam02132"
                     /db_xref="CDD:202123"
     misc_feature    40414..40746
                     /gene="recR"
                     /locus_tag="CLC_0053"
                     /note="TOPRIM_recR: topoisomerase-primase (TOPRIM)
                     nucleotidyl transferase/hydrolase domain of the type found
                     in Escherichia coli RecR.  RecR participates in the RecFOR
                     pathway of homologous recombinational repair in
                     prokaryotes. This pathway provides a...; Region:
                     TOPRIM_recR; cd01025"
                     /db_xref="CDD:173775"
     misc_feature    order(40432..40437,40444..40446,40603..40605,40609..40611,
                     40615..40617)
                     /gene="recR"
                     /locus_tag="CLC_0053"
                     /note="putative active site [active]"
                     /db_xref="CDD:173775"
     misc_feature    order(40432..40434,40603..40605)
                     /gene="recR"
                     /locus_tag="CLC_0053"
                     /note="putative metal-binding site [ion binding]; other
                     site"
                     /db_xref="CDD:173775"
     misc_feature    order(40450..40458,40462..40467,40585..40587,40591..40593,
                     40597..40599,40606..40608,40642..40644,40672..40707,
                     40711..40713,40726..40728,40732..40734,40738..40746)
                     /gene="recR"
                     /locus_tag="CLC_0053"
                     /note="tetramer interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:173775"
     gene            40827..41090
                     /locus_tag="CLC_0054"
                     /db_xref="GeneID:5400768"
                     /db_xref="Pathema:CLC_0054"
     CDS             40827..41090
                     /locus_tag="CLC_0054"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001385993.1"
                     /db_xref="GI:153936595"
                     /db_xref="GeneID:5400768"
                     /db_xref="Pathema:CLC_0054"
                     /translation="MGGFFIMKKLNDGKNEKKLLLESIDSVISEINNIRRLFENASDP
                     KLIDYAIYMEEALKAKYIYLLKEAKEEGIKVEYCDTIKEVEVG"
     misc_feature    40848..41054
                     /locus_tag="CLC_0054"
                     /note="Protein of unknown function (DUF2508); Region:
                     DUF2508; pfam10704"
                     /db_xref="CDD:220854"
     gene            41240..41500
                     /gene="bofA"
                     /locus_tag="CLC_0055"
                     /db_xref="GeneID:5401699"
                     /db_xref="Pathema:CLC_0055"
     CDS             41240..41500
                     /gene="bofA"
                     /locus_tag="CLC_0055"
                     /note="identified by match to protein family HMM PF07441;
                     match to protein family HMM TIGR02862"
                     /codon_start=1
                     /transl_table=11
                     /product="sigma-K factor processing regulatory protein
                     BofA"
                     /protein_id="YP_001385994.1"
                     /db_xref="GI:153935371"
                     /db_xref="GeneID:5401699"
                     /db_xref="Pathema:CLC_0055"
                     /translation="MGIEYIAYFILAIFLLFVVVKIFSWPLKILLSLIGNAILGTVLL
                     FILNVIGGAFNFYIGINIWTALIAGFFGIPGVIFLIIFKLFL"
     misc_feature    41249..41497
                     /gene="bofA"
                     /locus_tag="CLC_0055"
                     /note="pro-sigmaK processing inhibitor BofA; Region:
                     spore_BofA; TIGR02862"
                     /db_xref="CDD:163046"
     gene            41651..42343
                     /gene="sfsA"
                     /locus_tag="CLC_0056"
                     /db_xref="GeneID:5400775"
                     /db_xref="Pathema:CLC_0056"
     CDS             41651..42343
                     /gene="sfsA"
                     /locus_tag="CLC_0056"
                     /note="Regulatory factor involved in maltose metabolism"
                     /codon_start=1
                     /transl_table=11
                     /product="sugar fermentation stimulation protein A"
                     /protein_id="YP_001385995.1"
                     /db_xref="GI:153937461"
                     /db_xref="GeneID:5400775"
                     /db_xref="Pathema:CLC_0056"
                     /translation="MKITKNILKAEFIKRPNRFQAYVKINEKIEMVHVPNTGRCKEIL
                     IPGSMVILREENNENRKTRYDLIAGYKGDMLINIDSQIPNKVVHEALMNLKIDILKEY
                     TNIKREKTFGKSRFDFKLEKENGEIYYLEVKGVTLENDGLTMFPDAPTERGTKHILEL
                     IDVKNKGMGAGVLFLIQLNGVKKFTPHHKMDKNFGEALRLAKEKGVDILAYDCLVEES
                     SISLNNPISIEI"
     misc_feature    41651..42340
                     /gene="sfsA"
                     /locus_tag="CLC_0056"
                     /note="putative DNA-binding transcriptional regulator;
                     Reviewed; Region: PRK00347"
                     /db_xref="CDD:234733"
     gene            42399..42887
                     /locus_tag="CLC_0057"
                     /db_xref="GeneID:5398793"
                     /db_xref="Pathema:CLC_0057"
     CDS             42399..42887
                     /locus_tag="CLC_0057"
                     /note="identified by match to protein family HMM PF00293"
                     /codon_start=1
                     /transl_table=11
                     /product="NUDIX family hydrolase"
                     /protein_id="YP_001385996.1"
                     /db_xref="GI:153936479"
                     /db_xref="GeneID:5398793"
                     /db_xref="Pathema:CLC_0057"
                     /translation="MKFKYCPLCGEKLIEKYSWDEGGVPYCKRHNIMYFDTPKPCIVV
                     GVLKEDHVLLLKQSYIFKNSKVLLSGYVSSGETVEETVYREVKEEAGINIKDLRYLGS
                     DYLESKDIVMLTFMATYKDGILNKSEEVEWIDWIPIEEAIDHMEEDEIGKKIIKKIMK
                     NC"
     misc_feature    42516..42827
                     /locus_tag="CLC_0057"
                     /note="NADH pyrophosphatase, a member of the Nudix
                     hydrolase superfamily, catalyzes the cleavage of NADH into
                     reduced nicotinamide mononucleotide (NMNH) and AMP. Like
                     other members of the Nudix family, it requires a divalent
                     cation, such as Mg2+ or Mn2+, for...; Region:
                     NADH_pyrophosphatase; cd03429"
                     /db_xref="CDD:239521"
     misc_feature    order(42519..42521,42603..42611,42711..42713,42720..42722,
                     42726..42728,42732..42734)
                     /locus_tag="CLC_0057"
                     /note="putative NADH binding site [chemical binding];
                     other site"
                     /db_xref="CDD:239521"
     misc_feature    order(42606..42611,42615..42617,42651..42653,42660..42665,
                     42711..42713,42720..42722,42726..42728,42732..42734)
                     /locus_tag="CLC_0057"
                     /note="putative active site [active]"
                     /db_xref="CDD:239521"
     misc_feature    42606..42674
                     /locus_tag="CLC_0057"
                     /note="nudix motif; other site"
                     /db_xref="CDD:239521"
     misc_feature    order(42651..42653,42660..42665,42783..42785)
                     /locus_tag="CLC_0057"
                     /note="putative metal binding site [ion binding]; other
                     site"
                     /db_xref="CDD:239521"
     gene            43005..43727
                     /locus_tag="CLC_0058"
                     /db_xref="GeneID:5398445"
                     /db_xref="Pathema:CLC_0058"
     CDS             43005..43727
                     /locus_tag="CLC_0058"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001385997.1"
                     /db_xref="GI:153935104"
                     /db_xref="GeneID:5398445"
                     /db_xref="Pathema:CLC_0058"
                     /translation="MSNKIEKTPKRVPEIKGVLRSHMIEVPSIIREASGIRVFGKRIK
                     SFVYSTDVAVIKNTNADAVIAVYPFTPQPIITQSLVLAADIPVFCGVGGGLTTGKRVV
                     NLALDAEFKGAMGVVINNPTPNDVLQQIKDTIDIPIVVTVVSEYEDIEARINSGATIL
                     NISGAKKTAYIVREIRKRYPDFPIIATGGPNEASIKETIEAGANAITYTPPPASDIFS
                     EVMDKYRVNFKKEHDREENEQS"
     misc_feature    <43518..43694
                     /locus_tag="CLC_0058"
                     /note="TIM barrel proteins share a structurally conserved
                     phosphate binding motif and in general share an eight
                     beta/alpha closed barrel structure. Specific for this
                     family is the conserved phosphate binding site at the
                     edges of strands 7 and 8. The phosphate...; Region:
                     TIM_phosphate_binding; cl17186"
                     /db_xref="CDD:247740"
     gene            43861..44649
                     /locus_tag="CLC_0059"
                     /db_xref="GeneID:5400339"
                     /db_xref="Pathema:CLC_0059"
     CDS             43861..44649
                     /locus_tag="CLC_0059"
                     /note="identified by match to protein family HMM PF00037"
                     /codon_start=1
                     /transl_table=11
                     /product="(Fe-S)-binding protein"
                     /protein_id="YP_001385998.1"
                     /db_xref="GI:153934545"
                     /db_xref="GeneID:5400339"
                     /db_xref="Pathema:CLC_0059"
                     /translation="MNGMLFYFSGTGNTKWVADRIEDKLCKLDNTIHKVNIENLDDDV
                     LIKIHNYDFIIIGTPIYAEMGPKLIQDFVNNIPKVKEKIKCILYSTQGGNSGCETESM
                     HKILCNKGYDVVIKVNIKMINNYYFSVGKKPDEAEMANILRDAEKKVDLVVDKFSKGE
                     VYLENINKTRLFLGKIASKGFNKFLPKLSNNLKSTEHCIKCGMCVRNCPKGNIVFENG
                     GVVFHSNCILCLRCIYICPSNAIVYKEKRIDQIEKNIIKLLDIK"
     misc_feature    43873..44232
                     /locus_tag="CLC_0059"
                     /note="Flavodoxin-like fold; Region: Flavodoxin_2;
                     cl00438"
                     /db_xref="CDD:241863"
     misc_feature    <44446..44616
                     /locus_tag="CLC_0059"
                     /note="RPB11 and RPB3 subunits of RNA polymerase; Region:
                     RNAP_RPB11_RPB3; cl11409"
                     /db_xref="CDD:245605"
     misc_feature    44452..44583
                     /locus_tag="CLC_0059"
                     /note="4Fe-4S dicluster domain; Region: Fer4_9; pfam13187"
                     /db_xref="CDD:221966"
     gene            44668..44829
                     /locus_tag="CLC_0060"
                     /db_xref="GeneID:5400900"
                     /db_xref="Pathema:CLC_0060"
     CDS             44668..44829
                     /locus_tag="CLC_0060"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001385999.1"
                     /db_xref="GI:153937588"
                     /db_xref="GeneID:5400900"
                     /db_xref="Pathema:CLC_0060"
                     /translation="MNINNDNCSKCINILKSNCNGNLENCICQKCVRNIEKCIITKYC
                     SETESTLSI"
     gene            45212..45916
                     /locus_tag="CLC_0061"
                     /db_xref="GeneID:5399274"
                     /db_xref="Pathema:CLC_0061"
     CDS             45212..45916
                     /locus_tag="CLC_0061"
                     /note="identified by match to protein family HMM PF00899"
                     /codon_start=1
                     /transl_table=11
                     /product="ThiF domain-containing protein"
                     /protein_id="YP_001386000.1"
                     /db_xref="GI:153935856"
                     /db_xref="GeneID:5399274"
                     /db_xref="Pathema:CLC_0061"
                     /translation="MENWLQRTEFLIGKEAIEKLNKSKIVVLGVGGVGSFVIEALVRS
                     GVGNITIVDNDTIDITNINRQIHANLNTVGKSKVEVMKERILSINPNCNVKIHEEFIN
                     KDNISELVAKDTDYVVDAIDTASSKILSIVWCDKNNINIISSMGTANKLHPTKLRIAD
                     IYDTKVCPLAKIMRYELRKRNIKSLKVLYSEETPIKNNNRPLNDKGRPTPASIAFVPP
                     CAGLIIAGEVVRDIIK"
     misc_feature    45212..45913
                     /locus_tag="CLC_0061"
                     /note="Dinucleotide-utilizing enzymes involved in
                     molybdopterin and thiamine biosynthesis family 1 [Coenzyme
                     metabolism]; Region: COG1179"
                     /db_xref="CDD:224100"
     misc_feature    45245..45898
                     /locus_tag="CLC_0061"
                     /note="Family of activating enzymes (E1) of ubiquitin-like
                     proteins related to the E.coli hypothetical protein ygdL.
                     The common reaction mechanism catalyzed by E1-like enzymes
                     begins with a nucleophilic attack of the C-terminal
                     carboxylate of the ubiquitin-like...; Region: YgdL_like;
                     cd00755"
                     /db_xref="CDD:238384"
     misc_feature    order(45296..45298,45302..45304,45308..45310,45368..45370,
                     45374..45376,45401..45403,45440..45442,45569..45571,
                     45587..45589)
                     /locus_tag="CLC_0061"
                     /note="putative ATP binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:238384"
     misc_feature    order(45308..45310,45590..45592,45644..45649,45665..45667)
                     /locus_tag="CLC_0061"
                     /note="putative substrate interface [chemical binding];
                     other site"
                     /db_xref="CDD:238384"
     gene            45999..47108
                     /locus_tag="CLC_0062"
                     /db_xref="GeneID:5398870"
                     /db_xref="Pathema:CLC_0062"
     CDS             45999..47108
                     /locus_tag="CLC_0062"
                     /note="identified by match to protein family HMM PF07690"
                     /codon_start=1
                     /transl_table=11
                     /product="major facilitator superfamily protein"
                     /protein_id="YP_001386001.1"
                     /db_xref="GI:153935425"
                     /db_xref="GeneID:5398870"
                     /db_xref="Pathema:CLC_0062"
                     /translation="MILVAVCDSTRGIFIPIFKNEFNINNTKIGLMITISTLGYTVFT
                     YLGGILCQKKGQKRVYSIGLLIISISFLLLNFTPNYIILIILMFLINGGQAFLAISSN
                     TIIPIIFISFQAIIMNLAHFNYGMGLALSQRISGMLLYRGITWRRIYLYLSIITFIVY
                     LLLFFINIPVINKSKDDNKLKSKEIFKDKLLYFYIFALGFYVFSEIATGNWFVNLMEN
                     GYRYNKNQSSYYIFLFSALFALGRLLGGFLVEKFNYIKAVCTSLAVALMMYTIGITLG
                     QKGLILISLSGIFFSIVYPTVVLTISKVYSTNSSYVTGIVVTLSSFVNMIISFLMGYL
                     NDLIGIYTSYYLIPISLFISLMFMFLIHKNIKKLA"
     misc_feature    <46431..47096
                     /locus_tag="CLC_0062"
                     /note="Fucose permease [Carbohydrate transport and
                     metabolism]; Region: FucP; COG0738"
                     /db_xref="CDD:223809"
     gene            47137..48081
                     /locus_tag="CLC_0063"
                     /db_xref="GeneID:5400135"
                     /db_xref="Pathema:CLC_0063"
     CDS             47137..48081
                     /locus_tag="CLC_0063"
                     /note="identified by match to protein family HMM PF00583"
                     /codon_start=1
                     /transl_table=11
                     /product="acetyltransferase"
                     /protein_id="YP_001386002.1"
                     /db_xref="GI:153934499"
                     /db_xref="GeneID:5400135"
                     /db_xref="Pathema:CLC_0063"
                     /translation="MNNKFKVSIELAKGTVDEYIVKDITGISIGRIFILELSKKNKYG
                     CFRLNLYRDGENSNIYLNYILKDFLQYLFYKKEVCKINIIINENMNTNVFIEYGFYLE
                     GIINDSRLIDGIKTSEFLFGLDIDTFRKANLYKELSIEGKNISLKLLTPINAQELLDY
                     YIRNERHLKSYEPTRDKTFYTLKEQRDLLMDSYKQYLNGNSLEFGIYKDKKFIGKIKI
                     SNIIMGIFKNCIVGYSIDKDFQGNGYMKEALKLLIDYTFNEIDIHRIEASTLIDNIRS
                     QKVLEGCGFKKLGINEKYLYIDGKWQDHVTYYIVNNNI"
     misc_feature    47545..48063
                     /locus_tag="CLC_0063"
                     /note="Acetyltransferases, including N-acetylases of
                     ribosomal proteins [Translation, ribosomal structure and
                     biogenesis]; Region: RimL; COG1670"
                     /db_xref="CDD:224584"
     misc_feature    47593..48051
                     /locus_tag="CLC_0063"
                     /note="N-Acyltransferase superfamily: Various enzymes that
                     characteristically catalyze the transfer of an acyl group
                     to a substrate; Region: NAT_SF; cl17182"
                     /db_xref="CDD:247736"
     gene            48468..49969
                     /gene="rrsB"
                     /locus_tag="CLC_0064"
                     /db_xref="GeneID:5401255"
                     /db_xref="Pathema:CLC_0064"
     rRNA            48468..49969
                     /gene="rrsB"
                     /locus_tag="CLC_0064"
                     /product="16S ribosomal RNA"
                     /db_xref="GeneID:5401255"
                     /db_xref="Pathema:CLC_0064"
     gene            50191..53092
                     /gene="rrlB"
                     /locus_tag="CLC_0067"
                     /db_xref="GeneID:5399157"
                     /db_xref="Pathema:CLC_0067"
     rRNA            50191..53092
                     /gene="rrlB"
                     /locus_tag="CLC_0067"
                     /product="23S ribosomal RNA"
                     /db_xref="GeneID:5399157"
                     /db_xref="Pathema:CLC_0067"
     gene            53214..53330
                     /gene="rrfB"
                     /locus_tag="CLC_0068"
                     /db_xref="GeneID:5401325"
                     /db_xref="Pathema:CLC_0068"
     rRNA            53214..53330
                     /gene="rrfB"
                     /locus_tag="CLC_0068"
                     /product="5S ribosomal RNA"
                     /db_xref="GeneID:5401325"
                     /db_xref="Pathema:CLC_0068"
     gene            53337..53412
                     /locus_tag="CLC_0069"
                     /db_xref="GeneID:5401326"
     tRNA            53337..53412
                     /locus_tag="CLC_0069"
                     /product="tRNA-Lys"
                     /db_xref="GeneID:5401326"
     gene            complement(53636..54232)
                     /locus_tag="CLC_0071"
                     /db_xref="GeneID:5400559"
                     /db_xref="Pathema:CLC_0071"
     CDS             complement(53636..54232)
                     /locus_tag="CLC_0071"
                     /note="identified by match to protein family HMM PF03167"
                     /codon_start=1
                     /transl_table=11
                     /product="uracil-DNA glycosylase"
                     /protein_id="YP_001386003.1"
                     /db_xref="GI:153937546"
                     /db_xref="GeneID:5400559"
                     /db_xref="Pathema:CLC_0071"
                     /translation="MDIQESLKNKIKNISEEYVGDKTGGYITGDGPIPCDILFIGEAP
                     GKNEVEEGKPFVGMAGKNFEKYLNSIGLKREFIRITNTCFFRPIKIKEGKNGRISISN
                     RPPKVSEISLFSSILDEEINLVNPKLIITLGNVPLKRLTSFKSIGDCHGNIYFIENLN
                     RYVFPMYHPSALTYNRSEEFHKIYENDWVKLREALGKI"
     misc_feature    complement(53657..54148)
                     /locus_tag="CLC_0071"
                     /note="Family 4 Uracil-DNA glycosylase (UDG), found
                     exclusively in thermophilic organisms; Region:
                     UDG_F4_TTUDGA_like; cd10030"
                     /db_xref="CDD:198428"
     misc_feature    complement(order(53729..53731,53990..53992,54068..54073,
                     54089..54091,54104..54112))
                     /locus_tag="CLC_0071"
                     /note="active site"
                     /db_xref="CDD:198428"
     misc_feature    complement(order(53885..53887,53894..53899,53978..53986))
                     /locus_tag="CLC_0071"
                     /note="Fe-S cluster binding site [ion binding]; other
                     site"
                     /db_xref="CDD:198428"
     gene            55096..56597
                     /gene="rrsC"
                     /locus_tag="CLC_0072"
                     /db_xref="GeneID:5400373"
                     /db_xref="Pathema:CLC_0072"
     rRNA            55096..56597
                     /gene="rrsC"
                     /locus_tag="CLC_0072"
                     /product="16S ribosomal RNA"
                     /db_xref="GeneID:5400373"
                     /db_xref="Pathema:CLC_0072"
     gene            56819..59720
                     /gene="rrlC"
                     /locus_tag="CLC_0075"
                     /db_xref="GeneID:5399379"
                     /db_xref="Pathema:CLC_0075"
     rRNA            56819..59720
                     /gene="rrlC"
                     /locus_tag="CLC_0075"
                     /product="23S ribosomal RNA"
                     /db_xref="GeneID:5399379"
                     /db_xref="Pathema:CLC_0075"
     gene            59853..59969
                     /gene="rrfC"
                     /locus_tag="CLC_0076"
                     /db_xref="GeneID:5401421"
                     /db_xref="Pathema:CLC_0076"
     rRNA            59853..59969
                     /gene="rrfC"
                     /locus_tag="CLC_0076"
                     /product="5S ribosomal RNA"
                     /db_xref="GeneID:5401421"
                     /db_xref="Pathema:CLC_0076"
     gene            59976..60051
                     /locus_tag="CLC_0077"
                     /db_xref="GeneID:5401327"
     tRNA            59976..60051
                     /locus_tag="CLC_0077"
                     /product="tRNA-Lys"
                     /db_xref="GeneID:5401327"
     gene            60394..60957
                     /locus_tag="CLC_0079"
                     /db_xref="GeneID:5401453"
                     /db_xref="Pathema:CLC_0079"
     CDS             60394..60957
                     /locus_tag="CLC_0079"
                     /note="DNA-dependent RNA polymerase catalyzes the
                     transcription of DNA into RNA using the four
                     ribonucleoside triphosphates as substrates"
                     /codon_start=1
                     /transl_table=11
                     /product="RNA polymerase factor sigma-70"
                     /protein_id="YP_001386004.1"
                     /db_xref="GI:153934922"
                     /db_xref="GeneID:5401453"
                     /db_xref="Pathema:CLC_0079"
                     /translation="MKIDEDNFITQLKYKNSKALDFIVEEYSNIVFKIIRTVLNSNFH
                     SQYVEECANDVFWSVWSNIDSFDENKGNFKHWIAAISKYKAIDYKRKLFKQNNIESID
                     DHILCGDTSIEKDFILNENKEEIFEVMNYMKKEDREIFIRRYFLDEKVENIAKILGVN
                     RNLIDKRLSRGRKFLREKLILLKGEIL"
     misc_feature    60394..60954
                     /locus_tag="CLC_0079"
                     /note="RNA polymerase factor sigma-70; Validated; Region:
                     PRK06811"
                     /db_xref="CDD:180707"
     misc_feature    60460..60666
                     /locus_tag="CLC_0079"
                     /note="Sigma-70 region 2; Region: Sigma70_r2; pfam04542"
                     /db_xref="CDD:218138"
     misc_feature    60757..60921
                     /locus_tag="CLC_0079"
                     /note="Sigma70, region (SR) 4 refers to the most
                     C-terminal of four conserved domains found in Escherichia
                     coli (Ec) sigma70, the main housekeeping sigma, and
                     related sigma-factors (SFs). A SF is a dissociable subunit
                     of RNA polymerase, it directs bacterial or...; Region:
                     Sigma70_r4; cd06171"
                     /db_xref="CDD:100119"
     misc_feature    order(60790..60792,60820..60822,60838..60843,60871..60873,
                     60877..60882,60886..60894,60898..60903,60907..60909)
                     /locus_tag="CLC_0079"
                     /note="DNA binding residues [nucleotide binding]"
                     /db_xref="CDD:100119"
     gene            60954..62396
                     /locus_tag="CLC_0080"
                     /db_xref="GeneID:5399355"
                     /db_xref="Pathema:CLC_0080"
     CDS             60954..62396
                     /locus_tag="CLC_0080"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386005.1"
                     /db_xref="GI:153934549"
                     /db_xref="GeneID:5399355"
                     /db_xref="Pathema:CLC_0080"
                     /translation="MKGNKKINLQEKELYKLFNEIKFEESELNNMEEEVDIIQKERIK
                     KNLNNKIKRKNRSNNLKYTSIAAAITLVFSIGIVTTSPTFAKNIPVLNSIMQTLNNKY
                     GNRGDYAKYSEIINKSVSNNGITITINEVIADDSKLVISYTLKTNKKIKDLEVFGLGG
                     FLKIDGKTFSSMGTSFGQYIDDYTYIGSEEIHTSIPENKKFNIDVNITEVSDIKGKWN
                     FAFSASKEEISRESTVFKPNQKLDLPDSNGTIHKVVFSPIDTSIFITGYGKNKNIKAG
                     PNGGMFDYNYWIAFDDTGVELIPKGIGGGECDFNKNTFSSEMQYEKSKSIPKYLTIIP
                     CKITPLGGGGVKRDENGKEMPITIQTKKPKEIGKTIDGVYPIELSQGKMGKLIINDIK
                     TENNKTIVKYTAKGMAPYFQAQDLLIKDDKGKCIEIKDYIRRADDQNPNEFTKIFEAL
                     DPNKKYTIFTNNFDNVEFREDLKFKIELNK"
     misc_feature    61137..61397
                     /locus_tag="CLC_0080"
                     /note="Domain of unknown function (DUF4179); Region:
                     DUF4179; pfam13786"
                     /db_xref="CDD:222379"
     gene            63041..64542
                     /gene="rrsE"
                     /locus_tag="CLC_0081"
                     /db_xref="GeneID:5398462"
                     /db_xref="Pathema:CLC_0081"
     rRNA            63041..64542
                     /gene="rrsE"
                     /locus_tag="CLC_0081"
                     /product="16S ribosomal RNA"
                     /db_xref="GeneID:5398462"
                     /db_xref="Pathema:CLC_0081"
     gene            64764..67665
                     /gene="rrlE"
                     /locus_tag="CLC_0084"
                     /db_xref="GeneID:5399278"
                     /db_xref="Pathema:CLC_0084"
     rRNA            64764..67665
                     /gene="rrlE"
                     /locus_tag="CLC_0084"
                     /product="23S ribosomal RNA"
                     /db_xref="GeneID:5399278"
                     /db_xref="Pathema:CLC_0084"
     gene            67718..67834
                     /gene="rrfE"
                     /locus_tag="CLC_0085"
                     /db_xref="GeneID:5401232"
                     /db_xref="Pathema:CLC_0085"
     rRNA            67718..67834
                     /gene="rrfE"
                     /locus_tag="CLC_0085"
                     /product="5S ribosomal RNA"
                     /db_xref="GeneID:5401232"
                     /db_xref="Pathema:CLC_0085"
     gene            67842..67917
                     /locus_tag="CLC_0086"
                     /db_xref="GeneID:5400730"
     tRNA            67842..67917
                     /locus_tag="CLC_0086"
                     /product="tRNA-Phe"
                     /db_xref="GeneID:5400730"
     gene            68058..68801
                     /locus_tag="CLC_0088"
                     /db_xref="GeneID:5400743"
                     /db_xref="Pathema:CLC_0088"
     CDS             68058..68801
                     /locus_tag="CLC_0088"
                     /note="identified by match to protein family HMM PF00639"
                     /codon_start=1
                     /transl_table=11
                     /product="peptidil-prolyl isomerase"
                     /protein_id="YP_001386006.1"
                     /db_xref="GI:153936847"
                     /db_xref="GeneID:5400743"
                     /db_xref="Pathema:CLC_0088"
                     /translation="MENNIVAIVNGQEITDRDVDNTILSFPKERQTYLNTEKGREELI
                     KQMIDFELSYNYAKDMKFDETEDFKKQLEATKKQLLIQVAVSNALARATVSEEESKKY
                     YEENKEEFRTQELITARHILVDSEEEANNIYEEIKNGLDFSEAAEKYSKCPSKAQGGS
                     LGTFTRGQMVPEFEKAVLEAEVDKVTQAIKTQFGYHLIIVDNIKESMIKPFDEVKAMI
                     DNKLLQEKQNQQYNEFTQNLRDKYTVEIK"
     misc_feature    <68067..>68243
                     /locus_tag="CLC_0088"
                     /note="SurA N-terminal domain; Region: SurA_N_3; cl07813"
                     /db_xref="CDD:244798"
     misc_feature    68415..68663
                     /locus_tag="CLC_0088"
                     /note="PPIC-type PPIASE domain; Region: Rotamase;
                     pfam00639"
                     /db_xref="CDD:216038"
     gene            69323..70824
                     /gene="rrsF"
                     /locus_tag="CLC_0089"
                     /db_xref="GeneID:5398238"
                     /db_xref="Pathema:CLC_0089"
     rRNA            69323..70824
                     /gene="rrsF"
                     /locus_tag="CLC_0089"
                     /product="16S ribosomal RNA"
                     /db_xref="GeneID:5398238"
                     /db_xref="Pathema:CLC_0089"
     gene            71046..73947
                     /gene="rrlF"
                     /locus_tag="CLC_0092"
                     /db_xref="GeneID:5401721"
                     /db_xref="Pathema:CLC_0092"
     rRNA            71046..73947
                     /gene="rrlF"
                     /locus_tag="CLC_0092"
                     /product="23S ribosomal RNA"
                     /db_xref="GeneID:5401721"
                     /db_xref="Pathema:CLC_0092"
     gene            74053..74169
                     /gene="rrfF"
                     /locus_tag="CLC_0093"
                     /db_xref="GeneID:5398634"
                     /db_xref="Pathema:CLC_0093"
     rRNA            74053..74169
                     /gene="rrfF"
                     /locus_tag="CLC_0093"
                     /product="5S ribosomal RNA"
                     /db_xref="GeneID:5398634"
                     /db_xref="Pathema:CLC_0093"
     gene            74540..75283
                     /locus_tag="CLC_0094"
                     /db_xref="GeneID:5401535"
                     /db_xref="Pathema:CLC_0094"
     CDS             74540..75283
                     /locus_tag="CLC_0094"
                     /EC_number="3.6.1.-"
                     /note="Modulates the activities of several enzymes which
                     are inactive in their acetylated form"
                     /codon_start=1
                     /transl_table=11
                     /product="NAD-dependent deacetylase"
                     /protein_id="YP_001386007.1"
                     /db_xref="GI:153935622"
                     /db_xref="GeneID:5401535"
                     /db_xref="Pathema:CLC_0094"
                     /translation="MRLEKLKHIIDNSENIVFLGGAGVSTESNIPDFRSNNGLYKSKN
                     NLNYSPETILSHSFFKNNAKEFFQFYKDKMIFKDAKPNLAHYALTELEQIGKLKTIIT
                     QNIDGLHQLSGAKNVLELHGSVHRNYCVNCGEKYNLDYILNTENSSEDIPYCKKCGSI
                     VRPDVVLYEEGLDMDTISKAIYYIQNADVLIVGGTSLVVYPAAGLVNYYKGKKLVLIN
                     KAETPYDKKADLVIHDSIGSVLEKVIKKN"
     misc_feature    74540..75277
                     /locus_tag="CLC_0094"
                     /note="NAD-dependent deacetylase; Provisional; Region:
                     PRK00481"
                     /db_xref="CDD:234777"
     misc_feature    74582..75241
                     /locus_tag="CLC_0094"
                     /note="SIR2 family of proteins includes silent information
                     regulator 2 (Sir2) enzymes which catalyze NAD+-dependent
                     protein/histone deacetylation, where the acetyl group from
                     the lysine epsilon-amino group is transferred to the
                     ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407"
                     /db_xref="CDD:238698"
     misc_feature    order(74606..74608,74612..74617,74636..74641,74792..74794,
                     74846..74851,74855..74857,74900..74902,75119..75121,
                     75134..75136,75194..75199)
                     /locus_tag="CLC_0094"
                     /note="NAD+ binding site [chemical binding]; other site"
                     /db_xref="CDD:238698"
     misc_feature    order(74852..74854,74900..74902,75035..75037,75041..75055,
                     75131..75139)
                     /locus_tag="CLC_0094"
                     /note="substrate binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:238698"
     misc_feature    order(74924..74926,74933..74935,74999..75001,75008..75010)
                     /locus_tag="CLC_0094"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:238698"
     gene            75365..75438
                     /locus_tag="CLC_0095"
                     /db_xref="GeneID:5401567"
     tRNA            75365..75438
                     /locus_tag="CLC_0095"
                     /product="tRNA-Cys"
                     /db_xref="GeneID:5401567"
     gene            complement(75469..76377)
                     /locus_tag="CLC_0096"
                     /db_xref="GeneID:5401783"
                     /db_xref="Pathema:CLC_0096"
     CDS             complement(75469..76377)
                     /locus_tag="CLC_0096"
                     /note="identified by match to protein family HMM PF02016"
                     /codon_start=1
                     /transl_table=11
                     /product="LD-carboxypeptidase"
                     /protein_id="YP_001386008.1"
                     /db_xref="GI:153935897"
                     /db_xref="GeneID:5401783"
                     /db_xref="Pathema:CLC_0096"
                     /translation="MLLKHLNKGDTIGIVSPASPIEKDVVLKNIQVFKNLGFNIKLSN
                     HVYDKYGYLSGKDIDRANDLMDMFIDPSVYMILCSRGGYGSMRMLPYLDFNIIKNNPK
                     IFGGFSDITVLLNYITSKCGFTTFHCPMLSSNFNNIYTLKNFLEPLMNDFTSFEISNP
                     NFVPLLSQTNDIVEGNLVGGNLSLICNTLGTPYEIDTMDNILFLEEISEPPYKIDRML
                     TQLILSGKIKSCSGLILGQFTNCNINDCENDFSLDEVILDRLLSSNKPIISNLMSGHC
                     DPNVTLPIGSKIRLDCKNKLIKILNY"
     misc_feature    complement(75511..76344)
                     /locus_tag="CLC_0096"
                     /note="LD-Carboxypeptidase, a serine protease, includes
                     microcin C7 self immunity protein; Region: Peptidase_S66;
                     cd07025"
                     /db_xref="CDD:132882"
     misc_feature    complement(order(75601..75606,75718..75723,75730..75735,
                     75739..75744,75808..75813,75817..75822,76117..76122))
                     /locus_tag="CLC_0096"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:132882"
     misc_feature    complement(order(75553..75555,75763..75765,76054..76056))
                     /locus_tag="CLC_0096"
                     /note="catalytic triad [active]"
                     /db_xref="CDD:132882"
     gene            complement(76413..77354)
                     /locus_tag="CLC_0097"
                     /db_xref="GeneID:5399340"
                     /db_xref="Pathema:CLC_0097"
     CDS             complement(76413..77354)
                     /locus_tag="CLC_0097"
                     /note="identified by match to protein family HMM PF01544"
                     /codon_start=1
                     /transl_table=11
                     /product="CorA family protein"
                     /protein_id="YP_001386009.1"
                     /db_xref="GI:153937176"
                     /db_xref="GeneID:5399340"
                     /db_xref="Pathema:CLC_0097"
                     /translation="MISIYKNTEQDKTIKKLDNIEPGTWINIVSPSEQELIFVSKKTG
                     VSLDFLKASLDEEETSRIDIEDNNMIVILDIPFTEMEDNSLTYDTYPLAIINTPNNII
                     TVCLKNSKILTDFFNNKVKSFYTFKRSRFILQILYRVASYFLLYLRQIDKKSVMIEKK
                     LHKSMKNRELILLLSLEKSLVYFSTSLKANEITLEKMLKLDIIQRYPEDQDILEDVII
                     ENKQAIEMANIYSNILSGTMDAFASVISNNLNIVMKLLASITIVMSIPNIIFGSFGMN
                     LNGIPFSKSSQGFGLACGVTVILCIVCIIILKKKDLF"
     misc_feature    complement(76470..77354)
                     /locus_tag="CLC_0097"
                     /note="Mg2+ and Co2+ transporters [Inorganic ion transport
                     and metabolism]; Region: CorA; COG0598"
                     /db_xref="CDD:223671"
     misc_feature    complement(76467..77282)
                     /locus_tag="CLC_0097"
                     /note="uncharacterized bacterial subfamily of the
                     Escherichia coli CorA-Salmonella typhimurium ZntB family;
                     Region: EcCorA_ZntB-like_u2; cd12827"
                     /db_xref="CDD:213361"
     misc_feature    complement(order(76704..76706,76770..76772,76779..76784,
                     76929..76931,76938..76940,77022..77027,77031..77042,
                     77082..77084,77133..77135,77139..77141,77175..77177,
                     77274..77276))
                     /locus_tag="CLC_0097"
                     /note="Cl binding site [ion binding]; other site"
                     /db_xref="CDD:213361"
     misc_feature    complement(order(76473..76478,76485..76490,76524..76547,
                     76551..76568,76572..76580,76584..76622,76626..76649,
                     76656..76664,76668..76673,76677..76682,76689..76694,
                     76698..76703,76710..76715,76719..76724,76755..76760,
                     76767..76772,76779..76784,76788..76790,76800..76805,
                     76809..76814,76821..76826,76833..76838,76842..76847,
                     76881..76883,76890..76895,76899..76904,76911..76913,
                     76920..76925,76932..76934,76944..76946,76956..76958,
                     76965..76967,77001..77003,77013..77015,77166..77168,
                     77172..77174,77199..77204,77211..77213))
                     /locus_tag="CLC_0097"
                     /note="oligomer interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:213361"
     gene            77719..78222
                     /locus_tag="CLC_0098"
                     /db_xref="GeneID:5399718"
                     /db_xref="Pathema:CLC_0098"
     CDS             77719..78222
                     /locus_tag="CLC_0098"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386010.1"
                     /db_xref="GI:153936188"
                     /db_xref="GeneID:5399718"
                     /db_xref="Pathema:CLC_0098"
                     /translation="MGNMYKETVARRTVPVLFFMLILLVGILFLVEFLKSIKFYGYKL
                     DEILNIFLLSIVILVSFLEVFKFKIKYSYFIIADQFIIHKIKGNYDKVVENIKLKDII
                     YFDKCAGLRSKIDISKSKKYTCSLLDRDTYCCVYKDGNSTKKFYFEPSNNLITKIKYL
                     SNKRLAS"
     gene            complement(78227..79388)
                     /locus_tag="CLC_0099"
                     /note="amidohydrolase homolog, authentic frameshift; this
                     gene contains a frame shift which is not the result of
                     sequencing error; identified by similarity to
                     GB:AAO34866.1"
                     /pseudo
                     /db_xref="GeneID:5398616"
                     /db_xref="Pathema:CLC_0099"
     gene            79642..79854
                     /locus_tag="CLC_0100"
                     /db_xref="GeneID:5401019"
                     /db_xref="Pathema:CLC_0100"
     CDS             79642..79854
                     /locus_tag="CLC_0100"
                     /codon_start=1
                     /transl_table=11
                     /product="csfB protein-like protein"
                     /protein_id="YP_001386011.1"
                     /db_xref="GI:153935414"
                     /db_xref="GeneID:5401019"
                     /db_xref="Pathema:CLC_0100"
                     /translation="MKKQYCIICGKPLNSGIIINRKGICDVCEERMVNSDMSTDFYEF
                     YKKCIRKNLVQTFIKDEEMRWENYRF"
     misc_feature    79654..79791
                     /locus_tag="CLC_0100"
                     /note="Inhibitor of sigma-G Gin; Region: Gin; pfam10764"
                     /db_xref="CDD:204552"
     gene            79833..81281
                     /locus_tag="CLC_0101"
                     /db_xref="GeneID:5398393"
                     /db_xref="Pathema:CLC_0101"
     CDS             79833..81281
                     /locus_tag="CLC_0101"
                     /note="identified by match to protein family HMM PF01276;
                     match to protein family HMM PF03711"
                     /codon_start=1
                     /transl_table=11
                     /product="Orn/Lys/Arg decarboxylase"
                     /protein_id="YP_001386012.1"
                     /db_xref="GI:153935270"
                     /db_xref="GeneID:5398393"
                     /db_xref="Pathema:CLC_0101"
                     /translation="MGELPILNGVLKYIKEKNILFSMPGHKGSLGFLFTKEGKKFCEN
                     MPQCDLTEVEGLDNLHNSEGIIKESGYLLSRFYNSKKSYFLVNGSTSGNLAMIFSCFK
                     EEDKIIVERNCHRSIFNGIIMRKLKPIYIKNKVYRQFNAPLSIDLEHFLSLIKENKDA
                     KGIVITYPNYYGVCPNLKVIIKEAKKYDMKVLIDSAHGAHFGVCEKLPKSALELGADM
                     VVMSAHKTLPSLTQTAFLHIGKDSIIDINKVDFYISAFSSTSPSYLFLCSMDYSRFYL
                     EKYGQEHYNELINRANYYRKKINLLDSFYVLNHSDIKHLNLKYKDVMDIDLTRYTINI
                     KNGLNANCLSKYLRECGIQCEMSDGNNIILILSPFYNEDVMDRLYESLYEWDKNYNKD
                     KYNYNINYNYIETNMNMYPYEVLEKEYLWIDYKDSLGKISYNNIVPYPPGVPIIMAGE
                     IINKEIIDAICYYKNNGIDALGLKDNKIQIVK"
     misc_feature    79833..81263
                     /locus_tag="CLC_0101"
                     /note="Arginine/lysine/ornithine decarboxylases [Amino
                     acid transport and metabolism]; Region: LdcC; COG1982"
                     /db_xref="CDD:224893"
     misc_feature    79845..80729
                     /locus_tag="CLC_0101"
                     /note="Ornithine decarboxylase family. This family belongs
                     to pyridoxal phosphate (PLP)-dependent aspartate
                     aminotransferase superfamily (fold I). The major groups in
                     this CD corresponds to ornithine decarboxylase (ODC),
                     arginine decarboxylase (ADC) and lysine...; Region:
                     Orn_deC_like; cd00615"
                     /db_xref="CDD:99739"
     misc_feature    order(79977..79979,79989..79991,80013..80015,80088..80096,
                     80100..80105,80112..80114,80124..80132,80136..80141,
                     80172..80177,80502..80507,80514..80528,80583..80588,
                     80592..80600,80604..80606,80625..80627,80634..80636,
                     80643..80645,80679..80684)
                     /locus_tag="CLC_0101"
                     /note="homodimer interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:99739"
     misc_feature    order(80094..80102,80172..80174,80178..80180,80328..80330,
                     80412..80414,80418..80423,80496..80498,80502..80507)
                     /locus_tag="CLC_0101"
                     /note="pyridoxal 5'-phosphate binding site [chemical
                     binding]; other site"
                     /db_xref="CDD:99739"
     misc_feature    80505..80507
                     /locus_tag="CLC_0101"
                     /note="catalytic residue [active]"
                     /db_xref="CDD:99739"
     misc_feature    <81078..>81197
                     /locus_tag="CLC_0101"
                     /note="Orn/Lys/Arg decarboxylase, C-terminal domain;
                     Region: OKR_DC_1_C; pfam03711"
                     /db_xref="CDD:112521"
     gene            81305..82000
                     /locus_tag="CLC_0102"
                     /db_xref="GeneID:5400294"
                     /db_xref="Pathema:CLC_0102"
     CDS             81305..82000
                     /locus_tag="CLC_0102"
                     /codon_start=1
                     /transl_table=11
                     /product="thymidylate kinase"
                     /protein_id="YP_001386013.1"
                     /db_xref="GI:153937766"
                     /db_xref="GeneID:5400294"
                     /db_xref="Pathema:CLC_0102"
                     /translation="MERGRLIVIEGSDGSGKATQTKKLYDKLVRENKKVKKVEFPNYK
                     SESSALIKMYLSGEFGRNPDSVNPYASSTFYAVDRFASYKKDWEEFYLKGGIIIADRY
                     TTSNMIHQAAKIKDVQAKDNFLNWLWDFEFRKFNLPVPDCVIFLDMPPKFSKILMKTR
                     NNKFTGEKEKDIHENNYEYLLESYNNSKYISEKYDWNRIECTNKDKIKSIDQINDDII
                     KIITQYIDFSEQR"
     misc_feature    81317..>81754
                     /locus_tag="CLC_0102"
                     /note="thymidylate kinase; Provisional; Region: PRK13975;
                     cl17243"
                     /db_xref="CDD:247797"
     gene            82081..82410
                     /locus_tag="CLC_0103"
                     /db_xref="GeneID:5399203"
                     /db_xref="Pathema:CLC_0103"
     CDS             82081..82410
                     /locus_tag="CLC_0103"
                     /note="identified by match to protein family HMM PF06153"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386014.1"
                     /db_xref="GI:153935075"
                     /db_xref="GeneID:5399203"
                     /db_xref="Pathema:CLC_0103"
                     /translation="MKLVIAIVQDDDASDLIDEITEEGFRVTKLATTGGFLKAGNTTL
                     MIGVEEKDVDRLIKKVEDICKTRKQIVTAPSPINGSTGMYVSYPIEVEVGGATIFVVD
                     VDKFARV"
     misc_feature    82081..82407
                     /locus_tag="CLC_0103"
                     /note="Protein of unknown function (DUF970); Region:
                     DUF970; pfam06153"
                     /db_xref="CDD:114848"
     gene            82428..83372
                     /locus_tag="CLC_0104"
                     /db_xref="GeneID:5401578"
                     /db_xref="Pathema:CLC_0104"
     CDS             82428..83372
                     /locus_tag="CLC_0104"
                     /note="catalyzes the DNA-template-directed extension of
                     the 3'-end of a DNA strand; the delta' subunit seems to
                     interact with the gamma subunit to transfer the beta
                     subunit on the DNA"
                     /codon_start=1
                     /transl_table=11
                     /product="DNA polymerase III subunit delta'"
                     /protein_id="YP_001386015.1"
                     /db_xref="GI:153935866"
                     /db_xref="GeneID:5401578"
                     /db_xref="Pathema:CLC_0104"
                     /translation="MDSHTIIGHENIKNRIKNSIIKGKFPHASIIVGEDGIGKSIIAK
                     EMAMIILEKSQQRSYADLIEFKPINKKSIGIDDIRNLIEEINKKPIEGNKKVIIIYKS
                     ELITEVAQNAFLKTIEEPPKGVYIILLCENMEQMLDTIKSRCEIFKLNRLKPCDIENF
                     IKYKYKDIKKENINSAIAFSDGIPGKAERFIEDESLKYIRDMSLGILKDSKDLSNYNY
                     LIKYENFLINYKENWEEILTCILSYLRDSLLFKETGDEELLLNVDKKEYIKHISEKYS
                     YINLDKMVSIINDTRDKLSKNINSTLVFDAMLIKMQEV"
     misc_feature    82428..83369
                     /locus_tag="CLC_0104"
                     /note="DNA polymerase III subunit delta'; Validated;
                     Region: PRK05564"
                     /db_xref="CDD:180132"
     misc_feature    82632..>82961
                     /locus_tag="CLC_0104"
                     /note="DNA polymerase III subunit delta'; Validated;
                     Region: PRK08485"
                     /db_xref="CDD:236274"
     gene            83374..84288
                     /locus_tag="CLC_0105"
                     /db_xref="GeneID:5399661"
                     /db_xref="Pathema:CLC_0105"
     CDS             83374..84288
                     /locus_tag="CLC_0105"
                     /note="identified by match to protein family HMM PF04468"
                     /codon_start=1
                     /transl_table=11
                     /product="PSP1 domain-containing protein"
                     /protein_id="YP_001386016.1"
                     /db_xref="GI:153935087"
                     /db_xref="GeneID:5399661"
                     /db_xref="Pathema:CLC_0105"
                     /translation="MIEVVGVRFKKAGKIYYFDPSNIEINKGEYVIVETIRGIEFGEA
                     VIAKKQINESEIVAPLKNVIRKATEEDIKKHHENKEKEKYALETCLQKIQEHKLNMKL
                     IDVEYTFDNNKVIFYFTADGRVDFRELVKDLASIFRTRIELRQIGVRDEAKMVGGLGP
                     CGRPMCCSIFLGDFAPVSIKMAKEQNLSLNPTKISGICGRLMCCLNYEQQTYESIRKV
                     LPKIGSIVKTPYGQGEVVDNNVVKEEVKVKIKSEDNEEFIQPVPIIEAELISGGYEGN
                     IESVDEEEINIEIDDADETIIKELLKDE"
     misc_feature    83374..84069
                     /locus_tag="CLC_0105"
                     /note="Uncharacterized homolog of PSP1 [Function unknown];
                     Region: COG1774"
                     /db_xref="CDD:224688"
     gene            84300..84503
                     /locus_tag="CLC_0106"
                     /db_xref="GeneID:5401445"
                     /db_xref="Pathema:CLC_0106"
     CDS             84300..84503
                     /locus_tag="CLC_0106"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386017.1"
                     /db_xref="GI:153937748"
                     /db_xref="GeneID:5401445"
                     /db_xref="Pathema:CLC_0106"
                     /translation="MKALLKVWDMRTIQDINKVKSAVANNEGVVACEISKEKKEVSVI
                     YDDYFVDVDKIIESIENIGYTVI"
     misc_feature    84300..84500
                     /locus_tag="CLC_0106"
                     /note="Copper chaperone [Inorganic ion transport and
                     metabolism]; Region: CopZ; COG2608"
                     /db_xref="CDD:225328"
     gene            84585..84755
                     /locus_tag="CLC_0107"
                     /db_xref="GeneID:5400060"
                     /db_xref="Pathema:CLC_0107"
     CDS             84585..84755
                     /locus_tag="CLC_0107"
                     /note="identified by match to protein family HMM PF00037"
                     /codon_start=1
                     /transl_table=11
                     /product="ferredoxin, 4Fe-4S"
                     /protein_id="YP_001386018.1"
                     /db_xref="GI:153936953"
                     /db_xref="GeneID:5400060"
                     /db_xref="Pathema:CLC_0107"
                     /translation="MAYKITDACVSCGACAAECPVNAISQGDSIFDIDADTCIDCGNC
                     ANVCPVGAPVQD"
     misc_feature    <84594..>84746
                     /locus_tag="CLC_0107"
                     /note="The HCP family of iron-sulfur proteins includes
                     hybrid cluster protein (HCP), acetyl-CoA synthase (ACS),
                     and carbon monoxide dehydrogenase (CODH), all of which
                     contain [Fe4-S4] metal clusters at their active sites.
                     These proteins have a conserved...; Region: HCP_like;
                     cl14655"
                     /db_xref="CDD:246686"
     misc_feature    84609..84737
                     /locus_tag="CLC_0107"
                     /note="4Fe-4S dicluster domain; Region: Fer4_7; pfam12838"
                     /db_xref="CDD:221801"
     gene            84876..85616
                     /locus_tag="CLC_0108"
                     /db_xref="GeneID:5401693"
                     /db_xref="Pathema:CLC_0108"
     CDS             84876..85616
                     /locus_tag="CLC_0108"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386019.1"
                     /db_xref="GI:153935508"
                     /db_xref="GeneID:5401693"
                     /db_xref="Pathema:CLC_0108"
                     /translation="MDRIIKEDETLDDLQLKGIHVIQKKQAFRFGIDAVLLANFPTIK
                     NGAKVVDLCSGTGIIPFILAGKTNASNIIGIEIQKEIADMANRSIKYNNLQEKVKFIE
                     GDLKNLKLLKDIEKVDVVTVNPPYKTQGTGIININDKNAISRHEICCTLDDVVKAAKV
                     LLKDKGKLYMIHRPDRIVDIMNVMRKYYIEPKLIRTIHPAVDKAPSMILIEGQKNGGK
                     FLKWDRPLYIYDENNKYTNEVKRIYGIE"
     misc_feature    84885..85604
                     /locus_tag="CLC_0108"
                     /note="Predicted O-methyltransferase [General function
                     prediction only]; Region: COG4123"
                     /db_xref="CDD:226608"
     misc_feature    85017..>85253
                     /locus_tag="CLC_0108"
                     /note="S-adenosylmethionine-dependent methyltransferases
                     (SAM or AdoMet-MTase), class I;  AdoMet-MTases are enzymes
                     that use S-adenosyl-L-methionine (SAM or AdoMet) as a
                     substrate for methyltransfer, creating the product
                     S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases;
                     cd02440"
                     /db_xref="CDD:100107"
     misc_feature    order(85029..85049,85101..85106,85182..85190,85242..85244)
                     /locus_tag="CLC_0108"
                     /note="S-adenosylmethionine binding site [chemical
                     binding]; other site"
                     /db_xref="CDD:100107"
     gene            85636..86490
                     /locus_tag="CLC_0109"
                     /db_xref="GeneID:5400206"
                     /db_xref="Pathema:CLC_0109"
     CDS             85636..86490
                     /locus_tag="CLC_0109"
                     /EC_number="2.1.1.-"
                     /note="identified by match to protein family HMM PF00590;
                     match to protein family HMM TIGR00096"
                     /codon_start=1
                     /transl_table=11
                     /product="tetrapyrrole methylase"
                     /protein_id="YP_001386020.1"
                     /db_xref="GI:153936779"
                     /db_xref="GeneID:5400206"
                     /db_xref="Pathema:CLC_0109"
                     /translation="MLNIEEGKLYVVPTPIGNLRDITIRALDVLEDVDIIAAEDTRQT
                     LKLLNHFNIKKTLISYHKFNEEDKSINIINNLKEGKKIALVSDAGMPGISDPGYVLIK
                     KCIEEQIIFEVLPGATAFTTALVYSGMDTTKFIFKGFIPRENKNRQKLIQDIKDRMET
                     LIFYESPHRLKECLKFLRDSLGNRNISICRELTKLHEEIIRDSLEEVIKYYENKQPKG
                     EYVLVLQGKSIEEIEKEKEMEWSSINIQDHIKKYINEGYSKKESIKLVAKDRKITKSE
                     VYKYSIDI"
     misc_feature    85651..86487
                     /locus_tag="CLC_0109"
                     /note="Predicted methyltransferases [General function
                     prediction only]; Region: COG0313"
                     /db_xref="CDD:223390"
     misc_feature    85660..86313
                     /locus_tag="CLC_0109"
                     /note="Ribosomal RNA small subunit methyltransferase I,
                     also known as rRNA (cytidine-2'-O-)-methyltransferase
                     RsmI; Region: RsmI; cd11648"
                     /db_xref="CDD:212507"
     misc_feature    order(85681..85683,85897..85905,85912..85917,85987..85992,
                     86125..86127,86200..86202,86206..86211,86290..86298)
                     /locus_tag="CLC_0109"
                     /note="putative SAM binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:212507"
     misc_feature    order(85699..85710,85714..85716,85903..85920,85927..85932,
                     85936..85941,85972..85974,85978..85989,85993..85998,
                     86005..86010,86035..86049)
                     /locus_tag="CLC_0109"
                     /note="putative homodimer interface [polypeptide binding];
                     other site"
                     /db_xref="CDD:212507"
     gene            86646..87749
                     /locus_tag="CLC_0110"
                     /db_xref="GeneID:5398228"
                     /db_xref="Pathema:CLC_0110"
     CDS             86646..87749
                     /locus_tag="CLC_0110"
                     /note="identified by match to protein family HMM PF00877"
                     /codon_start=1
                     /transl_table=11
                     /product="NlpC/P60 family protein"
                     /protein_id="YP_001386021.1"
                     /db_xref="GI:153937146"
                     /db_xref="GeneID:5398228"
                     /db_xref="Pathema:CLC_0110"
                     /translation="MNKKVLSAVIALALAVSINAKVMAAPSSGQAHDKTLELEEKIQN
                     MDNSIQNLMYKIEDNNKDIEKNKEDISKLGKDIEKAQKQIESREDLFNKRVRAMYISG
                     FDSYADIILESKGLSDLITRVDTVKKVMGFDQGVIKELKTKKEEIKEKKVALDKKSTE
                     IVQLKAENEKKLSSMKSEKTKQEVVLKDLRDQEIKAAAEAAQKKAAERQVAQSQASVS
                     QSRGGNSVSVEAPASSGSSSSSSSSNSSNKPSNPAPPATHGDVVGYAMQFKGVPYVWG
                     GTSPSGFDCSGFVQYVYRNAAGIELPRDTYGQIGAGTRVSQDQLQPGDLVFPHTGHVG
                     IYIGGGQMIHAPQTGDVVKISSVWKFYAGVRVR"
     misc_feature    86733..>87203
                     /locus_tag="CLC_0110"
                     /note="Uncharacterized protein conserved in bacteria
                     [Function unknown]; Region: COG3883"
                     /db_xref="CDD:226400"
     misc_feature    <87423..87716
                     /locus_tag="CLC_0110"
                     /note="Cell wall-associated hydrolases
                     (invasion-associated proteins) [Cell envelope biogenesis,
                     outer membrane]; Region: Spr; COG0791"
                     /db_xref="CDD:223862"
     misc_feature    87453..87743
                     /locus_tag="CLC_0110"
                     /note="NlpC/P60 family; Region: NLPC_P60; pfam00877"
                     /db_xref="CDD:189752"
     gene            complement(87849..88094)
                     /locus_tag="CLC_0111"
                     /db_xref="GeneID:5401120"
                     /db_xref="Pathema:CLC_0111"
     CDS             complement(87849..88094)
                     /locus_tag="CLC_0111"
                     /note="identified by match to protein family HMM PF04014;
                     match to protein family HMM TIGR01439"
                     /codon_start=1
                     /transl_table=11
                     /product="AbrB family transcriptional regulator"
                     /protein_id="YP_001386022.1"
                     /db_xref="GI:153934492"
                     /db_xref="GeneID:5401120"
                     /db_xref="Pathema:CLC_0111"
                     /translation="MKSTGVVRRVDELGRIVIPIELRRTLDIAEKDALEIYVDGEQII
                     LKKYEPACIFCGDARDVINYKGKNICKNCLNEIKDNK"
     misc_feature    complement(87858..88094)
                     /locus_tag="CLC_0111"
                     /note="Regulators of stationary/sporulation gene
                     expression [Transcription]; Region: AbrB; COG2002"
                     /db_xref="CDD:224913"
     misc_feature    complement(87942..88073)
                     /locus_tag="CLC_0111"
                     /note="SpoVT / AbrB like domain; Region: SpoVT_AbrB;
                     smart00966"
                     /db_xref="CDD:198034"
     gene            88901..89512
                     /locus_tag="CLC_0112"
                     /db_xref="GeneID:5398624"
                     /db_xref="Pathema:CLC_0112"
     CDS             88901..89512
                     /locus_tag="CLC_0112"
                     /note="identified by match to protein family HMM PF08876"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386023.1"
                     /db_xref="GI:153935199"
                     /db_xref="GeneID:5398624"
                     /db_xref="Pathema:CLC_0112"
                     /translation="MENNNLEKIEYINKLAKEISNNTIVDYEDFPKYDLFLSQVIDYL
                     NDKFEEEDYTNNIVQNYIKNEVISKPQDGKKRGYTKLHLVQLVLLSYMRPLLTTEEIK
                     NVFTLAFNEINDRGDDIISWENAYKIFSDIQKDSFKDFVARQHFDEDKLKDIITKLEL
                     NSDEENRITIFLIVMTLICQASAIKKLVKKIVNDYTDKLDYNE"
     misc_feature    88973..89287
                     /locus_tag="CLC_0112"
                     /note="Domain of unknown function (DUF1836); Region:
                     DUF1836; pfam08876"
                     /db_xref="CDD:220053"
     gene            89934..91145
                     /gene="arcA-1"
                     /locus_tag="CLC_0113"
                     /db_xref="GeneID:5398693"
                     /db_xref="Pathema:CLC_0113"
     CDS             89934..91145
                     /gene="arcA-1"
                     /locus_tag="CLC_0113"
                     /EC_number="3.5.3.6"
                     /note="identified by match to protein family HMM PF02274;
                     match to protein family HMM TIGR01078"
                     /codon_start=1
                     /transl_table=11
                     /product="arginine deiminase"
                     /protein_id="YP_001386024.1"
                     /db_xref="GI:153936391"
                     /db_xref="GeneID:5398693"
                     /db_xref="Pathema:CLC_0113"
                     /translation="MNTKRNIHVYSEIGDLRTVLLHRPGEEIENLIPAYMETLLFDDI
                     PYLKVAQEEHDIFADTLRSNGVEVLYLEDLAAEAIQNKEIREKFIEEAIKESGTTDKT
                     YLEKIKKYLESMKEKELVCKIMAGIRRKELGIDESKEEYPFLMYPMPNLYFTRDPFAS
                     IGKGITINAMRTKTRRRETMFAKYIFKYHPEFKDSDIPLWYDRTGEHCIEGGDELVLS
                     DEVLAIGHSERTDSESVLKVAKNIFEAGESFKVILLFDIPKIRAFMHLDTVFTMLDHD
                     KFTVHGEIEGTLKVNAITYDEKTKELVIKEEIDSLEGILSKYLKRDIKVIRCGGGDKI
                     ISAREQWNDGSNTLAISPGKVITYERNYVTNEILDKNNVEVLTIPSSELSRGRGGPRC
                     MSMPLFRKDLK"
     misc_feature    89940..91139
                     /gene="arcA-1"
                     /locus_tag="CLC_0113"
                     /note="arginine deiminase; Provisional; Region: PRK01388"
                     /db_xref="CDD:234949"
     gene            complement(91231..91698)
                     /gene="ispF"
                     /locus_tag="CLC_0114"
                     /db_xref="GeneID:5398691"
                     /db_xref="Pathema:CLC_0114"
     CDS             complement(91231..91698)
                     /gene="ispF"
                     /locus_tag="CLC_0114"
                     /EC_number="4.6.1.12"
                     /note="catalyzes the conversion of
                     4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate
                     into 2-C-methyl-D-erythritol 2,4-cyclodiphosphate"
                     /codon_start=1
                     /transl_table=11
                     /product="2-C-methyl-D-erythritol 2,4-cyclodiphosphate
                     synthase"
                     /protein_id="YP_001386025.1"
                     /db_xref="GI:153934984"
                     /db_xref="GeneID:5398691"
                     /db_xref="Pathema:CLC_0114"
                     /translation="MRIGLGYDVHKLVENRPLIIGGVTIPHDKGLLGHSDADVLVHAI
                     MDALLGAAALGDIGKHFPDSDKNFKNISSLLLLSKVKDLINKEGYKIVNIDCTIIAQK
                     PKMLYHIDAMKKNICKCLKLDNNMLNIKATTEEGLGFTGKEEGISANAICLLD"
     misc_feature    complement(91237..91695)
                     /gene="ispF"
                     /locus_tag="CLC_0114"
                     /note="MECDP_synthase
                     (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase),
                     encoded by the ispF gene, catalyzes the formation of
                     2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the
                     non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid
                     biosynthesis; Region: MECDP_synthase; cd00554"
                     /db_xref="CDD:100025"
     misc_feature    complement(order(91240..91242,91246..91248,91252..91254,
                     91291..91299,91306..91311,91315..91317,91381..91383,
                     91387..91389,91408..91410,91414..91416,91420..91422,
                     91531..91536,91540..91545,91549..91551,91654..91656,
                     91666..91674,91678..91680,91684..91686,91690..91695))
                     /gene="ispF"
                     /locus_tag="CLC_0114"
                     /note="homotrimer interaction site [polypeptide binding];
                     other site"
                     /db_xref="CDD:100025"
     misc_feature    complement(order(91573..91575,91669..91671,91675..91677))
                     /gene="ispF"
                     /locus_tag="CLC_0114"
                     /note="zinc binding site [ion binding]; other site"
                     /db_xref="CDD:100025"
     misc_feature    complement(order(91300..91308,91381..91392,91396..91401,
                     91525..91527,91531..91533))
                     /gene="ispF"
                     /locus_tag="CLC_0114"
                     /note="CDP-binding sites; other site"
                     /db_xref="CDD:100025"
     gene            92434..93303
                     /locus_tag="CLC_0116"
                     /db_xref="GeneID:5399568"
                     /db_xref="Pathema:CLC_0116"
     CDS             92434..93303
                     /locus_tag="CLC_0116"
                     /note="identified by match to protein family HMM PF01522"
                     /codon_start=1
                     /transl_table=11
                     /product="polysaccharide deacetylase"
                     /protein_id="YP_001386027.1"
                     /db_xref="GI:153936172"
                     /db_xref="GeneID:5399568"
                     /db_xref="Pathema:CLC_0116"
                     /translation="MKNKKSLIFFAFIMMIAVLFSGCKKNNNVDDNNISEKKAQSKKQ
                     ERNIKNTDVRSFTKEPLIYNDKSVPVLMYHSIDYEKGNELRVPKEQFKEQMEYLKDNG
                     YTTLTLNELYNFLEKNKPIPEKSIVITLDDGYVDNYTNAYPILKELGFNATVFVVTSN
                     IDKDKRTLTSKQIKEMDEAGIQIASHTYNHDKLDDLSYEKQLQTMKKSKDDLEKILNH
                     KVDFIAYPYGKWNEESIKAAKDSGYKMAFTTQGGWSNKQDGIYTLNRVYISSLKGIDN
                     FKDRITNPNYNKS"
     misc_feature    92638..>93165
                     /locus_tag="CLC_0116"
                     /note="Predicted xylanase/chitin deacetylase [Carbohydrate
                     transport and metabolism]; Region: CDA1; COG0726"
                     /db_xref="CDD:223798"
     misc_feature    92806..93240
                     /locus_tag="CLC_0116"
                     /note="Putative catalytic NodB homology domain of PgaB,
                     IcaB, and similar proteins which consist of a deformed
                     (beta/alpha)8 barrel fold with 5- or 6-strands; Region:
                     CE4_NodB_like_5s_6s; cd10918"
                     /db_xref="CDD:213023"
     misc_feature    order(92824..92829,92989..92991,93001..93003,93109..93117)
                     /locus_tag="CLC_0116"
                     /note="putative active site [active]"
                     /db_xref="CDD:213023"
     misc_feature    order(92827..92829,92989..92991,93001..93003)
                     /locus_tag="CLC_0116"
                     /note="putative metal binding site [ion binding]; other
                     site"
                     /db_xref="CDD:213023"
     gene            complement(93572..93814)
                     /locus_tag="CLC_0117"
                     /db_xref="GeneID:5400214"
                     /db_xref="Pathema:CLC_0117"
     CDS             complement(93572..93814)
                     /locus_tag="CLC_0117"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386028.1"
                     /db_xref="GI:153936920"
                     /db_xref="GeneID:5400214"
                     /db_xref="Pathema:CLC_0117"
                     /translation="MTLREIMKYIESEFSIINKTPCDICGGSYLTKDLSINLLDSIPY
                     DICDCVCSNCGHKKVFKFYAPFIDESKKENYSKIIN"
     gene            93934..94509
                     /gene="spmA"
                     /locus_tag="CLC_0118"
                     /db_xref="GeneID:5400191"
                     /db_xref="Pathema:CLC_0118"
     CDS             93934..94509
                     /gene="spmA"
                     /locus_tag="CLC_0118"
                     /note="identified by match to protein family HMM PF07670"
                     /codon_start=1
                     /transl_table=11
                     /product="spore maturation protein A"
                     /protein_id="YP_001386029.1"
                     /db_xref="GI:153937227"
                     /db_xref="GeneID:5400191"
                     /db_xref="Pathema:CLC_0118"
                     /translation="MVNIIWGIIFLVGVMFGVFSGNGEQLSKSIIESTNSTVKLVIGL
                     VGVMSLWCGIMKIAEESGLTDKIAKCIKPILKVIFKDSKNDNKALGAITMNLTANMMG
                     LSNAATPFGIKAMKELKRLNVKEEEASNDMALFLVLNAACIQLVPTTVISIRAAMGSK
                     NPGEIIIPAIIVTSTAAFCGVIFCKILQKYF"
     misc_feature    93934..94506
                     /gene="spmA"
                     /locus_tag="CLC_0118"
                     /note="Uncharacterized membrane protein, required for
                     spore maturation in B.subtilis. [General function
                     prediction only]; Region: SpmA; COG2715"
                     /db_xref="CDD:225336"
     gene            94522..95040
                     /locus_tag="CLC_0119"
                     /db_xref="GeneID:5398428"
                     /db_xref="Pathema:CLC_0119"
     CDS             94522..95040
                     /locus_tag="CLC_0119"
                     /note="identified by match to protein family HMM PF07670"
                     /codon_start=1
                     /transl_table=11
                     /product="spore maturation protein B"
                     /protein_id="YP_001386030.1"
                     /db_xref="GI:153934572"
                     /db_xref="GeneID:5398428"
                     /db_xref="Pathema:CLC_0119"
                     /translation="MNYIVKAIIPIIILLIIAYGMIKRVKVYECFVEGAKDGISICIK
                     IFPYLLAMMVAIAVFRESKALDCLINILRPVSNLIGLPGELVPLVLIKPLSGSGALGV
                     FADILKQFGPDSNVGKMASIIMGSTETIFYTITVYFGAVGIKKIRHTLWAAIFADMVA
                     IIMAVLVTNIIL"
     misc_feature    94582..95037
                     /locus_tag="CLC_0119"
                     /note="Uncharacterized membrane protein [Function
                     unknown]; Region: SpmB; COG0700"
                     /db_xref="CDD:223772"
     gene            complement(95285..96622)
                     /locus_tag="CLC_0120"
                     /db_xref="GeneID:5400543"
                     /db_xref="Pathema:CLC_0120"
     CDS             complement(95285..96622)
                     /locus_tag="CLC_0120"
                     /note="identified by match to protein family HMM PF01554;
                     match to protein family HMM TIGR00797"
                     /codon_start=1
                     /transl_table=11
                     /product="MATE efflux family protein"
                     /protein_id="YP_001386031.1"
                     /db_xref="GI:153934879"
                     /db_xref="GeneID:5400543"
                     /db_xref="Pathema:CLC_0120"
                     /translation="MKINRENIKTVLSLALPAVGEMILYMMIWVLDTMMVGQYGGQIA
                     VSTVGLSSEIIYTFTNIFIAVGLSIGITSIVARSYGSDNLHLAEEYASIGLSIGILIA
                     FFISIILFIFPKTILSLANAKEAVLINGTIYMKIISLGIFFSMLTSLMNSIVRGYGNT
                     KTPLFISILINIVNLTLDYGLIFGKLGFPELGIRGAAIATSIANLSGFMFAIYYLFTK
                     SKIKPKIKYIKNINISRFKYLIRLSIPSSLQEASLSVSKLINTFMIMHLGTVAFASNQ
                     IALTVESISFMPGWGFAVAATTLTGHKIGEKNIEKARDYSHTCTFLGICIMGITGLIF
                     LIFPSFIIKLFITNSEKQVITLGSRCLMIASLEQIPMAISMILGGSLKGFGDTKTPFL
                     VSFISSWLLRLPLMFYFIYIVKSSVTYVWWITSIQWIFEAICLIILSRKKFNK"
     misc_feature    complement(95288..96601)
                     /locus_tag="CLC_0120"
                     /note="Na+-driven multidrug efflux pump [Defense
                     mechanisms]; Region: NorM; COG0534"
                     /db_xref="CDD:223608"
     misc_feature    complement(95297..96598)
                     /locus_tag="CLC_0120"
                     /note="Subfamily of the multidrug and toxic compound
                     extrusion (MATE)-like proteins similar to Thermotoga
                     marina NorM; Region: MATE_NorM_like; cd13137"
                     /db_xref="CDD:240542"
     gene            96766..97338
                     /gene="udgA"
                     /locus_tag="CLC_0121"
                     /db_xref="GeneID:5401508"
                     /db_xref="Pathema:CLC_0121"
     CDS             96766..97338
                     /gene="udgA"
                     /locus_tag="CLC_0121"
                     /EC_number="3.2.2.-"
                     /note="identified by match to protein family HMM PF03167;
                     match to protein family HMM TIGR00758"
                     /codon_start=1
                     /transl_table=11
                     /product="uracil-DNA glycosylase"
                     /protein_id="YP_001386032.1"
                     /db_xref="GI:153935117"
                     /db_xref="GeneID:5401508"
                     /db_xref="Pathema:CLC_0121"
                     /translation="MLKWSQLYDECINCNKCTLVKNRTNMVFGEGNISAPIMFIGEAP
                     GADEDRTGRPFVGKAGQLLTKALLALDFKRDEHYYICNVCKCRPENNRTPKEEEAMTC
                     LPYLRNQVALVKPKIMICLGATALKYIMGEQFRITRDRGKWIERKGYYIMATFHPAAL
                     FRDESKKKLLWQDLKSIREKYDELIKNNIV"
     misc_feature    96805..97299
                     /gene="udgA"
                     /locus_tag="CLC_0121"
                     /note="Family 4 Uracil-DNA glycosylase (UDG), found
                     exclusively in thermophilic organisms; Region:
                     UDG_F4_TTUDGA_like; cd10030"
                     /db_xref="CDD:198428"
     misc_feature    order(96805..96807,96811..96816,96820..96825,96832..96834,
                     97015..97023,97066..97071,97078..97080)
                     /gene="udgA"
                     /locus_tag="CLC_0121"
                     /note="Fe-S cluster binding site [ion binding]; other
                     site"
                     /db_xref="CDD:198428"
     misc_feature    order(96886..96894,96907..96909,96925..96930,97009..97011,
                     97231..97233)
                     /gene="udgA"
                     /locus_tag="CLC_0121"
                     /note="active site"
                     /db_xref="CDD:198428"
     gene            97367..97801
                     /locus_tag="CLC_0122"
                     /db_xref="GeneID:5401546"
                     /db_xref="Pathema:CLC_0122"
     CDS             97367..97801
                     /locus_tag="CLC_0122"
                     /note="identified by match to protein family HMM PF01047"
                     /codon_start=1
                     /transl_table=11
                     /product="MarR family transcriptional regulator"
                     /protein_id="YP_001386033.1"
                     /db_xref="GI:153936342"
                     /db_xref="GeneID:5401546"
                     /db_xref="Pathema:CLC_0122"
                     /translation="MDNMELSKELIKFIITMKKQIKKYLNLNSTLKLTEQQFVTLFIL
                     KKNKKITLKKLSTYICVSTSSLCIMLTRMMEEELVYREVDERDRRNTFYSLTEKGVNL
                     IDKEIEGKVDNIEEKIMNLSLSQKEKLYEAIKNIEEIIDILE"
     misc_feature    97451..97750
                     /locus_tag="CLC_0122"
                     /note="helix_turn_helix multiple antibiotic resistance
                     protein; Region: HTH_MARR; smart00347"
                     /db_xref="CDD:197670"
     misc_feature    <97463..97717
                     /locus_tag="CLC_0122"
                     /note="MarR family; Region: MarR_2; cl17246"
                     /db_xref="CDD:247800"
     gene            98183..100120
                     /gene="metG"
                     /locus_tag="CLC_0123"
                     /db_xref="GeneID:5400695"
                     /db_xref="Pathema:CLC_0123"
     CDS             98183..100120
                     /gene="metG"
                     /locus_tag="CLC_0123"
                     /EC_number="6.1.1.10"
                     /note="methionine--tRNA ligase; MetRS; adds methionine to
                     tRNA(Met) with cleavage of ATP to AMP and diphosphate;
                     some MetRS enzymes form dimers depending on a C-terminal
                     domain that is also found in other proteins such as
                     Trbp111 in Aquifex aeolicus and the cold-shock protein
                     CsaA from Bacillus subtilis while others do not; four
                     subfamilies exist based on sequence motifs and zinc
                     content"
                     /codon_start=1
                     /transl_table=11
                     /product="methionyl-tRNA synthetase"
                     /protein_id="YP_001386034.1"
                     /db_xref="GI:153936823"
                     /db_xref="GeneID:5400695"
                     /db_xref="Pathema:CLC_0123"
                     /translation="MSKGTYYVTTPIYYPSAKLHIGNTYTTVAADTLARFKRLTGYDV
                     MFLTGTDEHGQKIQRLAEAKKVTPKVYVDEIVAGIKELWKMMNIDYDKFIRTTDEYHV
                     ELVQKIFKTLYDKGDIYKSEYSGWYCTPCESFWTETQLEDGKCPDCGRSVEKAKEEAY
                     FFKMSKYAPKLIEYIESHPEFIQPESRKNEMLNNFLKPGLQDLCVSRTSFDWGIPVTF
                     DEKHVIYVWIDALANYITALGYSTEKDELYKKYWPADVHLVGKDILRFHTIYWPIMLM
                     ALDIPLPKQVFGHGWLLVDGGKMSKSKGNVVDPVVLVNHFGTDPVRYYLLREIPFGAD
                     GIFNNEIFIKKINSDLANDLGNLLSRTVAMIEKYFDGEIPAGNCKEDIDEELIKLALE
                     TPKKVEENMEKLRIPEALEEIWTFIGRANKYIDETTPWILAKDESKKERLGTVLYNLA
                     ESLRIISVCISAFIPETSIKINEQINADVLNWDSLSKFNGTKVGTKVKKGEAIFPRID
                     VEKKIEELNKLKEEQLKQNKAKNIAPIKEEITIDDFEKIDLRVAKVLECEPIKGAKKL
                     LKLKVSLGGEERQVVSGIAKYYKPEDLIGKKVVLVANLKPVKLRGELSQGMILAASTE
                     DDSELFVASIDGDIEEGNIVR"
     misc_feature    98183..100117
                     /gene="metG"
                     /locus_tag="CLC_0123"
                     /note="methionyl-tRNA synthetase; Reviewed; Region:
                     PRK12267"
                     /db_xref="CDD:237028"
     misc_feature    98195..99187
                     /gene="metG"
                     /locus_tag="CLC_0123"
                     /note="catalytic core domain of methioninyl-tRNA
                     synthetases; Region: MetRS_core; cd00814"
                     /db_xref="CDD:173907"
     misc_feature    order(98213..98218,98222..98224,98333..98335,98861..98863,
                     98870..98875,98882..98884,98969..98971,98981..98983)
                     /gene="metG"
                     /locus_tag="CLC_0123"
                     /note="active site"
                     /db_xref="CDD:173907"
     misc_feature    98240..98251
                     /gene="metG"
                     /locus_tag="CLC_0123"
                     /note="HIGH motif; other site"
                     /db_xref="CDD:173907"
     misc_feature    99074..99088
                     /gene="metG"
                     /locus_tag="CLC_0123"
                     /note="KMSKS motif; other site"
                     /db_xref="CDD:173907"
     misc_feature    99224..99607
                     /gene="metG"
                     /locus_tag="CLC_0123"
                     /note="Anticodon-binding domain of methionyl tRNA
                     synthetases; Region: Anticodon_Ia_Met; cd07957"
                     /db_xref="CDD:153411"
     misc_feature    order(99242..99247,99254..99259,99266..99271,99278..99283,
                     99290..99295,99443..99448,99452..99457,99470..99472)
                     /gene="metG"
                     /locus_tag="CLC_0123"
                     /note="tRNA binding surface [nucleotide binding]; other
                     site"
                     /db_xref="CDD:153411"
     misc_feature    order(99242..99244,99254..99259,99266..99271,99278..99283,
                     99290..99295,99452..99454,99470..99472)
                     /gene="metG"
                     /locus_tag="CLC_0123"
                     /note="anticodon binding site; other site"
                     /db_xref="CDD:153411"
     misc_feature    99797..100117
                     /gene="metG"
                     /locus_tag="CLC_0123"
                     /note="tRNA-binding-domain-containing Escherichia coli
                     methionyl-tRNA synthetase (EcMetRS)-like proteins.  This
                     family includes EcMetRS and Aquifex aeolicus Trbp111
                     (AaTrbp111). This domain has general tRNA binding
                     properties.  MetRS aminoacylates methionine...; Region:
                     tRNA_bind_EcMetRS_like; cd02800"
                     /db_xref="CDD:239199"
     misc_feature    order(99800..99802,99941..99943,99989..99997,
                     100004..100006,100040..100045,100052..100057,
                     100073..100075,100079..100081,100085..100087,
                     100094..100096,100106..100117)
                     /gene="metG"
                     /locus_tag="CLC_0123"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:239199"
     misc_feature    order(99875..99877,99911..99913,99989..99991,
                     100001..100003,100022..100024,100031..100033)
                     /gene="metG"
                     /locus_tag="CLC_0123"
                     /note="putative tRNA-binding site [nucleotide binding];
                     other site"
                     /db_xref="CDD:239199"
     gene            100285..101790
                     /locus_tag="CLC_0124"
                     /db_xref="GeneID:5399644"
                     /db_xref="Pathema:CLC_0124"
     CDS             100285..101790
                     /locus_tag="CLC_0124"
                     /note="identified by match to protein family HMM PF04286"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386035.1"
                     /db_xref="GI:153937583"
                     /db_xref="GeneID:5399644"
                     /db_xref="Pathema:CLC_0124"
                     /translation="MKFLIASIIGGIIGYLTNWIAIKMLFRPYEEKRIFGMKVPFTPG
                     LIPKEKTRIAKSVGNAIGEHLLSSEIIVKSLCSENMNNRLKIWIRQKVYSLITTKKTL
                     EDKFKEFLDYKYDYFINALKASLSKLTINNLKNEKNRDKVKQIIKIKLDKILSLKGNH
                     ITNNYIYKQIKRGLINNTNEYLKSNNFKEVLKSLIIENIKDEEVLNKKIGNIIPNNFT
                     SNIKVYVYRKKDNLSNYINEMLKEEGNINKLKNILREVINNNVNSFMSMFIDVNAISD
                     KTIVFLEGYLQREETKEEMVSLVNKSIDKILDTDLQDIIENIPENNKDVILNETVDIL
                     CQKFQNTEMILEMIEKIESHFQGKNSLNDIIEKININPYKFINSIIDKFIDSENFEAI
                     INNLISDIIENFMKTPIYELTQGNEEGILNTSYQTVKNVYNRFIENQAEEVISILDIS
                     SIVEDRINEFDVYLAEEIILEISSKELKAITWLGGLLGALIGILSPILSKI"
     misc_feature    100291..101466
                     /locus_tag="CLC_0124"
                     /note="Uncharacterized protein conserved in bacteria
                     [Function unknown]; Region: COG4399"
                     /db_xref="CDD:226834"
     gene            101941..102735
                     /locus_tag="CLC_0125"
                     /db_xref="GeneID:5399992"
                     /db_xref="Pathema:CLC_0125"
     CDS             101941..102735
                     /locus_tag="CLC_0125"
                     /note="identified by match to protein family HMM PF01026;
                     match to protein family HMM TIGR00010"
                     /codon_start=1
                     /transl_table=11
                     /product="TatD family hydrolase"
                     /protein_id="YP_001386036.1"
                     /db_xref="GI:153934841"
                     /db_xref="GeneID:5399992"
                     /db_xref="Pathema:CLC_0125"
                     /translation="MKKYRIFDAHAHYDDEAFDEDRSEVIKELEDFGILGVLNCGSSL
                     DTSKTSVELSNKYNFFYAAVGVHPENAEEINEKTLNKIEALSENKKVKAIGEIGLDYY
                     YEENPKRDIQIKAFKKQMELAEKLNLPVVIHDRDAHKDTLDIIKQFPNIKGEVHCFSG
                     SVEFAKQCVDLGYYIGVTGVVTFKNAKKIVEVIKSVPMDRILVETDCPYMAPTPLRGK
                     RNRSEYIKYMVDKIAEIKEISSEEVTSQILINIKDLFNIDVIKNKD"
     misc_feature    101956..102708
                     /locus_tag="CLC_0125"
                     /note="TatD like proteins;  E.coli TatD is a cytoplasmic
                     protein, shown to have magnesium dependent DNase activity;
                     Region: TatD_DNAse; cd01310"
                     /db_xref="CDD:238635"
     misc_feature    order(101968..101970,101974..101976,102337..102339,
                     102406..102408,102556..102558)
                     /locus_tag="CLC_0125"
                     /note="active site"
                     /db_xref="CDD:238635"
     gene            102963..104021
                     /locus_tag="CLC_0126"
                     /db_xref="GeneID:5398865"
                     /db_xref="Pathema:CLC_0126"
     CDS             102963..104021
                     /locus_tag="CLC_0126"
                     /note="identified by match to protein family HMM PF03990;
                     match to protein family HMM PF06725; match to protein
                     family HMM PF07501"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386037.1"
                     /db_xref="GI:153935585"
                     /db_xref="GeneID:5398865"
                     /db_xref="Pathema:CLC_0126"
                     /translation="MVEKLKKKIKEHFSNGPKAILIVVVILMIASIVITNMRKTIIVS
                     IDGKESQKITTFKKTYAKALTSKNIQVGPKDKVQPQLDAEIKDGSKLSIKKAVKVNVE
                     VDGKKLAIQSAENNIGDMLKKEGIQVKKLDKVAPSKEEEIKKGLKVTVTRVEEKVIKS
                     KKNMDYETVVKEDDSLEKGDKKVIREGQNGEKEVTTKVVFEDGKEKVRKVVSESIKKQ
                     PVSKVVAMGTKVTTVNALSRGGSVTGTPGGRLLRMRATAYTSSYEDTGKSPGSPDFGV
                     TATGTTARRNSGGYSSIAVDPRVIPLGTKLFVEGYGYAIAEDTGGAIKGNVIDLYFDS
                     NVEVSNWGSRWVNVYILD"
     misc_feature    103080..103211
                     /locus_tag="CLC_0126"
                     /note="Domain of unknown function (DUF348); Region:
                     DUF348; pfam03990"
                     /db_xref="CDD:202844"
     misc_feature    103257..103382
                     /locus_tag="CLC_0126"
                     /note="Domain of unknown function (DUF348); Region:
                     DUF348; pfam03990"
                     /db_xref="CDD:202844"
     misc_feature    103416..103652
                     /locus_tag="CLC_0126"
                     /note="G5 domain; Region: G5; pfam07501"
                     /db_xref="CDD:219434"
     misc_feature    103689..104012
                     /locus_tag="CLC_0126"
                     /note="Uncharacterized protein conserved in bacteria
                     [Function unknown]; Region: COG3584"
                     /db_xref="CDD:226112"
     gene            104094..104639
                     /locus_tag="CLC_0127"
                     /db_xref="GeneID:5399908"
                     /db_xref="Pathema:CLC_0127"
     CDS             104094..104639
                     /locus_tag="CLC_0127"
                     /note="identified by match to protein family HMM PF01751;
                     match to protein family HMM TIGR00334"
                     /codon_start=1
                     /transl_table=11
                     /product="primase-like protein"
                     /protein_id="YP_001386038.1"
                     /db_xref="GI:153936070"
                     /db_xref="GeneID:5399908"
                     /db_xref="Pathema:CLC_0127"
                     /translation="MIKEVIVVEGRDDITAVKRAVDAEMIAVGGFGINSKVIKKIREA
                     QKRQGVIVLTDPDYAGEKIRKYICNRVKGVKHAYISQEEGTKEDDIGVENAAPEAIIR
                     ALNLAKCEVKQERKEFDMNDMIFFKLTANEESKERREKLGMALGIGYCNTNQFIKRLN
                     NFGITKEEFIKAIKDLDKGNE"
     misc_feature    104097..104615
                     /locus_tag="CLC_0127"
                     /note="ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334"
                     /db_xref="CDD:232924"
     misc_feature    104097..104330
                     /locus_tag="CLC_0127"
                     /note="TOPRIM_ RNase M5_like: The topoisomerase-primase
                     (TOPRIM) nucleotidyl transferase/hydrolase domain found in
                     Ribonuclease M5: (RNase M5) and other small primase-like
                     proteins from bacteria and archaea.  RNase M5 catalyzes
                     the maturation of 5S rRNA in low...; Region:
                     TOPRIM_RNase_M5_like; cd01027"
                     /db_xref="CDD:173777"
     misc_feature    order(104118..104123,104130..104132,104256..104258,
                     104262..104264,104268..104270)
                     /locus_tag="CLC_0127"
                     /note="putative active site [active]"
                     /db_xref="CDD:173777"
     misc_feature    order(104118..104120,104256..104258)
                     /locus_tag="CLC_0127"
                     /note="putative metal binding site [ion binding]; other
                     site"
                     /db_xref="CDD:173777"
     misc_feature    104358..104615
                     /locus_tag="CLC_0127"
                     /note="Domain of unknown function (DUF4093); Region:
                     DUF4093; pfam13331"
                     /db_xref="CDD:205511"
     gene            104641..105468
                     /gene="ksgA"
                     /locus_tag="CLC_0128"
                     /db_xref="GeneID:5399946"
                     /db_xref="Pathema:CLC_0128"
     CDS             104641..105468
                     /gene="ksgA"
                     /locus_tag="CLC_0128"
                     /EC_number="2.1.1.-"
                     /note="catalyzes the transfer of a total of four methyl
                     groups from S-adenosyl-l-methionine (S-AdoMet) to two
                     adjacent adenosine bases A1518 and A1519 in 16S rRNA;
                     mutations in ksgA causes resistance to the translation
                     initiation inhibitor kasugamycin"
                     /codon_start=1
                     /transl_table=11
                     /product="dimethyladenosine transferase"
                     /protein_id="YP_001386039.1"
                     /db_xref="GI:153937047"
                     /db_xref="GeneID:5399946"
                     /db_xref="Pathema:CLC_0128"
                     /translation="MNTKEIVNKYEFKFNKNLGQNFLIDESVLEDIIEGAEINKEDTV
                     IEIGPGVGTLTKELLERAKEVYSIELDGDLIPILQEELKEYNNFTLIHKDALKIDFNE
                     LMENKDSIKLVANLPYYVTTPIISRLLTEKCDFKSLTIMIQKEVAERINAEPNCKEYG
                     SLTVLVQYYCNTKIIRKVSPNSFIPRPKVDSIVIKLDRLSEPRVRVKSQKLFFNVVRS
                     SFNMRRKTLWNSLKSLNIDKESMENAFERAGIDPKRRGETLSIEEFGKLSDCIYDIL"
     misc_feature    104641..105465
                     /gene="ksgA"
                     /locus_tag="CLC_0128"
                     /note="16S ribosomal RNA methyltransferase KsgA/Dim1
                     family protein; Reviewed; Region: ksgA; PRK00274"
                     /db_xref="CDD:234708"
     misc_feature    104767..105033
                     /gene="ksgA"
                     /locus_tag="CLC_0128"
                     /note="S-adenosylmethionine-dependent methyltransferases
                     (SAM or AdoMet-MTase), class I;  AdoMet-MTases are enzymes
                     that use S-adenosyl-L-methionine (SAM or AdoMet) as a
                     substrate for methyltransfer, creating the product
                     S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases;
                     cd02440"
                     /db_xref="CDD:100107"
     misc_feature    order(104779..104799,104845..104850,104917..104925,
                     104983..104985)
                     /gene="ksgA"
                     /locus_tag="CLC_0128"
                     /note="S-adenosylmethionine binding site [chemical
                     binding]; other site"
                     /db_xref="CDD:100107"
     gene            105547..106788
                     /locus_tag="CLC_0129"
                     /db_xref="GeneID:5401752"
                     /db_xref="Pathema:CLC_0129"
     CDS             105547..106788
                     /locus_tag="CLC_0129"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386040.1"
                     /db_xref="GI:153937636"
                     /db_xref="GeneID:5401752"
                     /db_xref="Pathema:CLC_0129"
                     /translation="MAQKKNYSRYFIILEEDEKGYSLGVDKSASGYVKLENKNGKCKI
                     SYYVQNIKKQSSPYHMVLICNKKGTKDIIKIGEMNIDEYGRADICYEYPVDNIGNSEI
                     NADKISGAAIVKFIDSNIISVMSGFSTTDIPTWKSFSIIESKEIKKEEIKEEKVNKTI
                     FDKYEESIEEIKIKDSNSANKDNKVKSVQENKEQEHKEKNLDNKNKEKGENIEKPNEK
                     PNEKANEKPNEKPNEKANEKPNEKPNEKANEKPNEKNLGKTKKSIEENEDKKRNKQNI
                     PIGLEGKYFRSLVEDLDSIDNITDEIKNCIWYKIDAKDEDDMRNTCNYDKFMVLYNPM
                     LGYYPYIKKHGHYILGYKCDISGNMKYLVYGIPGNKTREEQPFKGKSGFVTWIENKEN
                     NLGYWLMFYDYKTNNILIPVK"
     gene            106945..107532
                     /locus_tag="CLC_0130"
                     /db_xref="GeneID:5400523"
                     /db_xref="Pathema:CLC_0130"
     CDS             106945..107532
                     /locus_tag="CLC_0130"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386041.1"
                     /db_xref="GI:153936835"
                     /db_xref="GeneID:5400523"
                     /db_xref="Pathema:CLC_0130"
                     /translation="MKVLIINKKRFGVTMIIIGLMLILFGLEKNFDNRLKIAALIHNN
                     VSSFKEYNILNGKISYKLPSNWEINEEIINGEDIIYSNSFIDKKNNMKGFIQLWNYKG
                     DLKAFIKHSKEVSDKQQVDYTKYNVVPVDLNNMKGYLAQYSILKENKEYVAYEYFFKV
                     EEGFIRVSFFVPEKYYQESIETVFNTILKNIVYKH"
     gene            107701..108534
                     /locus_tag="CLC_0131"
                     /db_xref="GeneID:5401571"
                     /db_xref="Pathema:CLC_0131"
     CDS             107701..108534
                     /locus_tag="CLC_0131"
                     /codon_start=1
                     /transl_table=11
                     /product="lipoprotein"
                     /protein_id="YP_001386042.1"
                     /db_xref="GI:153936181"
                     /db_xref="GeneID:5401571"
                     /db_xref="Pathema:CLC_0131"
                     /translation="MLYNKKKLVLLFVIFALSFSVTGCNSIDKMKLKLGLKNNDFEYI
                     KENKVQKIIIQNTRDKGFRFVITDKKAIKELYDILSSAKPVNTKSSLEPDYIFEMDEA
                     GNKAYKFSYIAGLDKKEAGNLYSGDKIYIVSKRIDNDIIKSFWTIRKPKDFKYVYYNS
                     IIEVLKKENINKNNKDKVGINIKDDVDVAKFILSTDLEDFKTDLKNNFSNVELIKDNN
                     ANHNIEVSVDTEGYKSTMYKAVIKINNKNKRTEKKYYIVDEYKNNRWNINIYNEKPEN
                     F"
     gene            108702..109763
                     /locus_tag="CLC_0132"
                     /db_xref="GeneID:5399633"
                     /db_xref="Pathema:CLC_0132"
     CDS             108702..109763
                     /locus_tag="CLC_0132"
                     /note="identified by match to protein family HMM
                     TIGR01730"
                     /codon_start=1
                     /transl_table=11
                     /product="RND family marcrolide efflux protein"
                     /protein_id="YP_001386043.1"
                     /db_xref="GI:153937786"
                     /db_xref="GeneID:5399633"
                     /db_xref="Pathema:CLC_0132"
                     /translation="MKKKTIIITGVVLLIGLFVILGIFKSKKNSNISVKTIKVTKGNV
                     ESYLSTTGNVVSKNKKEYFGGQAKVKKVNVKVGDKVKKGQSLLNFDMSELENDRQVAQ
                     MEYDNAISQKKALKSQKNSEQNKMNSITNSQIEQVENAVRLAELKLESVNYKINESEE
                     TVADIDGIVTEVNAQAGGISTGQGQPLVVVENVDDLKVAVSLGKYDSTKVKKGMKAFV
                     KNDDKKYEAKVDFIAPTAKKTVKEAGGGNDTTLDCEIYLSKNNTKDLRIGFDVDVDIL
                     LGESKNVLKIPLESIKTDKYNKSHVYVVEEGKVKEKPVQLGTQSDMEAEIISGLKSGE
                     KVILNPNASIKTGVSVQEK"
     misc_feature    108948..109712
                     /locus_tag="CLC_0132"
                     /note="Membrane Fusion Protein cluster 2 (function with
                     RND porters); Region: 8a0102; TIGR00999"
                     /db_xref="CDD:233229"
     misc_feature    109179..>109418
                     /locus_tag="CLC_0132"
                     /note="HlyD family secretion protein; Region: HlyD_3;
                     pfam13437"
                     /db_xref="CDD:222128"
     gene            109774..110469
                     /locus_tag="CLC_0133"
                     /db_xref="GeneID:5399468"
                     /db_xref="Pathema:CLC_0133"
     CDS             109774..110469
                     /locus_tag="CLC_0133"
                     /note="identified by match to protein family HMM PF00005"
                     /codon_start=1
                     /transl_table=11
                     /product="macrolide efflux ABC transporter ATP-binding
                     protein"
                     /protein_id="YP_001386044.1"
                     /db_xref="GI:153934714"
                     /db_xref="GeneID:5399468"
                     /db_xref="Pathema:CLC_0133"
                     /translation="MLIVKDIEKTYNTGEISFKALKGISLKIERGEFTSIMGPSGSGK
                     STFMNILGCLDKMDKGEYILNGKDVTDLTENDLAYVRNKEIGFVFQAFNLLPRMTILD
                     NVELPMVYAGVPLKERKERALSALERVGLIERINHRPNEISGGQKQRVAIARAIVNNP
                     SVIMADEPTGNLDTKSSLDIMRIFQNLNEEGSTIIMVTHEPDIAKYTKRVVKFRDGHI
                     VSDEKVLNREIVE"
     misc_feature    109774..110442
                     /locus_tag="CLC_0133"
                     /note="ABC-type antimicrobial peptide transport system,
                     ATPase component [Defense mechanisms]; Region: SalX;
                     COG1136"
                     /db_xref="CDD:224059"
     misc_feature    109777..110427
                     /locus_tag="CLC_0133"
                     /note="ATP-binding cassette domain of the transporters
                     involved in export of lipoprotein and macrolide, and cell
                     division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255"
                     /db_xref="CDD:213222"
     misc_feature    109885..109908
                     /locus_tag="CLC_0133"
                     /note="Walker A/P-loop; other site"
                     /db_xref="CDD:213222"
     misc_feature    order(109894..109899,109903..109911,110041..110043,
                     110269..110274,110368..110370)
                     /locus_tag="CLC_0133"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:213222"
     misc_feature    110032..110043
                     /locus_tag="CLC_0133"
                     /note="Q-loop/lid; other site"
                     /db_xref="CDD:213222"
     misc_feature    110197..110226
                     /locus_tag="CLC_0133"
                     /note="ABC transporter signature motif; other site"
                     /db_xref="CDD:213222"
     misc_feature    110257..110274
                     /locus_tag="CLC_0133"
                     /note="Walker B; other site"
                     /db_xref="CDD:213222"
     misc_feature    110281..110292
                     /locus_tag="CLC_0133"
                     /note="D-loop; other site"
                     /db_xref="CDD:213222"
     misc_feature    110356..110376
                     /locus_tag="CLC_0133"
                     /note="H-loop/switch region; other site"
                     /db_xref="CDD:213222"
     gene            110466..111674
                     /locus_tag="CLC_0134"
                     /db_xref="GeneID:5400751"
                     /db_xref="Pathema:CLC_0134"
     CDS             110466..111674
                     /locus_tag="CLC_0134"
                     /note="identified by match to protein family HMM PF02687"
                     /codon_start=1
                     /transl_table=11
                     /product="macrolide efflux ABC transporter permease"
                     /protein_id="YP_001386045.1"
                     /db_xref="GI:153935428"
                     /db_xref="GeneID:5400751"
                     /db_xref="Pathema:CLC_0134"
                     /translation="MKFLENLKMALDSIKSNKMRSFLTMLGIIIGISSVITIVSLGKG
                     GQNTITGEFEKIGSATVSIKVDGSKASSNDYIKQEDVDIIKNKIEKVKYVAPIVSRPG
                     SVTEGTKNKKLYIDGSTPDVQYVTNAEMVYGRFFNEGEHVEGKPVVIIDERSARNIFG
                     TEDVVGRKLKISAKTSSKQVTVIGVSKSESGPFSGGGEDSPIFLTCPINFLKDLYPED
                     FIIDSLYIIATDKNDTEEVGVMAKNILENRHHNKGKDMYKVENMLKQLDEVNKVIGIF
                     TTFIGAVAAISLLVGGIGVMNIMLVSVTERTREIGIRKALGATTKNILIQFLTESVII
                     SLIGGLIGMILGIVFAEIIGKFIKISPSVSIAAILIAILFSSSVGIFFGIYPAKKAAK
                     LNPIDALRYE"
     misc_feature    110493..111176
                     /locus_tag="CLC_0134"
                     /note="MacB-like periplasmic core domain; Region:
                     MacB_PCD; pfam12704"
                     /db_xref="CDD:221725"
     misc_feature    110517..111671
                     /locus_tag="CLC_0134"
                     /note="ABC-type antimicrobial peptide transport system,
                     permease component [Defense mechanisms]; Region: SalY;
                     COG0577"
                     /db_xref="CDD:223650"
     misc_feature    111309..111650
                     /locus_tag="CLC_0134"
                     /note="FtsX-like permease family; Region: FtsX; pfam02687"
                     /db_xref="CDD:217187"
     gene            111756..112598
                     /locus_tag="CLC_0135"
                     /db_xref="GeneID:5398757"
                     /db_xref="Pathema:CLC_0135"
     CDS             111756..112598
                     /locus_tag="CLC_0135"
                     /codon_start=1
                     /transl_table=11
                     /product="MRP protein-like protein"
                     /protein_id="YP_001386046.1"
                     /db_xref="GI:153935572"
                     /db_xref="GeneID:5398757"
                     /db_xref="Pathema:CLC_0135"
                     /translation="MSNCDSCASKGTCNSEGSCSKETFKYGNAKNIIGVISGKGGVGK
                     STITGILATKLREEGYKVGVLDGDITGPSMPRFFGISDKRATIIPTGENEEVKIIPVE
                     TKTGIKVMSLNLLTEQEEAPVIWRGPVITGVLTQMYTDTEWGELDYLLIDMPPGTGDI
                     ALTVMQSLPVTNMVVVSTPQDMVSMIVKKVVIMIEKMGIEVLGVVENMSYIKCGSCGE
                     KLNVFSKKSAEEQAEYLNIPLIADMPINLDLSEEMEKGEVETFIINNEEYAQLYNNFK
                     NLYK"
     misc_feature    111906..112490
                     /locus_tag="CLC_0135"
                     /note="MRP (Multiple Resistance and pH adaptation) is a
                     homologue of the Fer4_NifH superfamily. Like the other
                     members of the superfamily, MRP contains a ATP-binding
                     domain at the N-termini. It is found in bacteria as a
                     membrane-spanning protein and functions...; Region:
                     MRP-like; cd02037"
                     /db_xref="CDD:238994"
     gene            112738..112929
                     /locus_tag="CLC_0136"
                     /db_xref="GeneID:5400019"
                     /db_xref="Pathema:CLC_0136"
     CDS             112738..112929
                     /locus_tag="CLC_0136"
                     /note="identified by match to protein family HMM PF00037"
                     /codon_start=1
                     /transl_table=11
                     /product="(Fe-S)-binding protein"
                     /protein_id="YP_001386047.1"
                     /db_xref="GI:153936525"
                     /db_xref="GeneID:5400019"
                     /db_xref="Pathema:CLC_0136"
                     /translation="MKIEIDKDKCIGCGLCEEIGDGLFKVGDEDKAELTIDPIPIMKE
                     QYGKEAEYVCPVNAIRTII"
     misc_feature    <112738..>112845
                     /locus_tag="CLC_0136"
                     /note="The Fer4_NifH superfamily contains a variety of
                     proteins which share a common ATP-binding domain.
                     Functionally, proteins in this superfamily use the energy
                     from hydrolysis of NTP to transfer electron or ion;
                     Region: Fer4_NifH; cl17203"
                     /db_xref="CDD:247757"
     misc_feature    112747..112917
                     /locus_tag="CLC_0136"
                     /note="4Fe-4S single cluster domain; Region: Fer4_15;
                     pfam13459"
                     /db_xref="CDD:222145"
     gene            113004..113138
                     /locus_tag="CLC_0137"
                     /db_xref="GeneID:5398912"
                     /db_xref="Pathema:CLC_0137"
     CDS             113004..113138
                     /locus_tag="CLC_0137"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386048.1"
                     /db_xref="GI:153935054"
                     /db_xref="GeneID:5398912"
                     /db_xref="Pathema:CLC_0137"
                     /translation="MNVVINLCMILVKFLQNLSFIKIYKILQESIVMSFPYITIDIAF
                     "
     gene            complement(113375..113551)
                     /locus_tag="CLC_0138"
                     /db_xref="GeneID:5400176"
                     /db_xref="Pathema:CLC_0138"
     CDS             complement(113375..113551)
                     /locus_tag="CLC_0138"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386049.1"
                     /db_xref="GI:153935868"
                     /db_xref="GeneID:5400176"
                     /db_xref="Pathema:CLC_0138"
                     /translation="MLGEIIDINENNIIVKFSNGLSLAVAIEDLHDNAKIGDKININP
                     CTEQTPYNKIINFF"
     gene            113629..114699
                     /locus_tag="CLC_0139"
                     /db_xref="GeneID:5399866"
                     /db_xref="Pathema:CLC_0139"
     CDS             113629..114699
                     /locus_tag="CLC_0139"
                     /note="identified by match to protein family HMM PF00990;
                     match to protein family HMM TIGR00254"
                     /codon_start=1
                     /transl_table=11
                     /product="diguanylate cyclase"
                     /protein_id="YP_001386050.1"
                     /db_xref="GI:153935993"
                     /db_xref="GeneID:5399866"
                     /db_xref="Pathema:CLC_0139"
                     /translation="MLYVLIITLFLIMIVYESIIIINLRKNIKKLEYSKRMIYNMTKN
                     VNKEKTIDNVYEIMLKTAINLIPKATQGSILTMDKEENFNYVAILGYDNKLKNIKLNK
                     KEVYLYKINRFKETAIIENPIKLDEKILNKEKINEFKELEALNISCIISAPIYIDNKL
                     FGQINIDCTKENYKFKKEDLELMDHIKDELQLIIKSFMVKEELIHKANYDELTKIFNR
                     RYFNEIMKNEIKEGNKILVLIDIDNFKTINDIYGHSTGDFILRVFANLIKRYLGDKDL
                     FFRFGGDEFIVLFDDLDDKSVISFMENIRQKINKDKIKGINIDFSYGISKLKNYNMTN
                     YEDIINLADKNMYINKNKKIIV"
     misc_feature    <113944..114237
                     /locus_tag="CLC_0139"
                     /note="FOG: GAF domain [Signal transduction mechanisms];
                     Region: FhlA; COG2203"
                     /db_xref="CDD:225113"
     misc_feature    114229..114657
                     /locus_tag="CLC_0139"
                     /note="c-di-GMP synthetase (diguanylate cyclase, GGDEF
                     domain) [Signal    transduction mechanisms]; Region:
                     COG2199"
                     /db_xref="CDD:225109"
     misc_feature    114250..114657
                     /locus_tag="CLC_0139"
                     /note="Diguanylate-cyclase (DGC) or GGDEF domain; Region:
                     GGDEF; cd01949"
                     /db_xref="CDD:143635"
     misc_feature    order(114346..114348,114475..114477)
                     /locus_tag="CLC_0139"
                     /note="metal binding site [ion binding]; metal-binding
                     site"
                     /db_xref="CDD:143635"
     misc_feature    order(114361..114363,114370..114375,114385..114387,
                     114397..114399,114463..114465,114469..114480)
                     /locus_tag="CLC_0139"
                     /note="active site"
                     /db_xref="CDD:143635"
     misc_feature    order(114451..114453,114535..114537)
                     /locus_tag="CLC_0139"
                     /note="I-site; other site"
                     /db_xref="CDD:143635"
     gene            114756..115484
                     /locus_tag="CLC_0140"
                     /db_xref="GeneID:5401235"
                     /db_xref="Pathema:CLC_0140"
     CDS             114756..115484
                     /locus_tag="CLC_0140"
                     /note="identified by match to protein family HMM PF02308"
                     /codon_start=1
                     /transl_table=11
                     /product="mgtC family protein"
                     /protein_id="YP_001386051.1"
                     /db_xref="GI:153935494"
                     /db_xref="GeneID:5401235"
                     /db_xref="Pathema:CLC_0140"
                     /translation="MDRKQVVFRIFLSIVIGGAIGFERERKNRPAGFRTHILVCIGSC
                     IAVMIQLYIIQYMKEMIQMDGDFKYLLSADISRMASQVITGVGFLGAGTIIRDKGAVK
                     GLTTAASIWVVACIGISVGLGFYFLSLVGFLGLIVSLIVFENIESSVIDKNKEYNINI
                     EYLPKNNVIEYIIDELLKNEITIKSIRIFDKNINENRTIKIKLTISTNNRLNFLSVIQ
                     NLQSNKNIHDIDILKINKIKNRIL"
     misc_feature    114771..115361
                     /locus_tag="CLC_0140"
                     /note="Uncharacterized membrane protein [Function
                     unknown]; Region: SapB; COG1285"
                     /db_xref="CDD:224204"
     misc_feature    114783..115202
                     /locus_tag="CLC_0140"
                     /note="MgtC family; Region: MgtC; pfam02308"
                     /db_xref="CDD:111223"
     gene            115774..117915
                     /gene="nrdD"
                     /locus_tag="CLC_0141"
                     /db_xref="GeneID:5399046"
                     /db_xref="Pathema:CLC_0141"
     CDS             115774..117915
                     /gene="nrdD"
                     /locus_tag="CLC_0141"
                     /EC_number="1.17.4.2"
                     /note="Catalyzes the reduction of nucleoside
                     5'-triphosphates to 2'-deoxynucleoside 5'-triphosphates"
                     /codon_start=1
                     /transl_table=11
                     /product="anaerobic ribonucleoside triphosphate reductase"
                     /protein_id="YP_001386052.1"
                     /db_xref="GI:153935349"
                     /db_xref="GeneID:5399046"
                     /db_xref="Pathema:CLC_0141"
                     /translation="MLYVVKRDGRKVEFDVVKISNAIKGAAEEIAFDMKESENISLTQ
                     KVIKKIEDSNKEEISVEDIQNLVEHVLIDSGFKEIGYAYSNYRRERTKIREIKSELMT
                     AIEKIGVETDRDNANVGNNFSSKLLRIASESNKWYNLGVMPKHLAKLHENGDIYYHDL
                     DSYNLTVNCLNIDTGRILQRGFNTGYGTINAPKRIESAAELSCILLQSTQNDMFGGQA
                     HVNFDNDMALFIPNTRSEIRKEILENLKGLEVQEEVLNKEKIDELVEERLRLRIHQAM
                     QGIVYNLNTMHSRAGSQVPFSSINIGIPKDKDAALICEIFLKEYEKGLGKGEQPIFPN
                     IIFRVKEGVNREEKDPYYYLFKLAAKIAGKRMNPTFMNMDSDFNKEYYDKGIIPATMG
                     CRTYVCSNISGEEGPAGRGNIAPTTINLPRVGILAKKDINKFFNLLDNRLELARESLL
                     HRYNVLKKLRVKDLPFVVGEGLMKGSENLLPDDSIEPILKQGSWAIGFIGIAETLTAL
                     IGSHHGETEEAKELGVKIVSHIRDFCDKYKEIDKLNWSCYATPAEGLSGKFILQDKKV
                     FGEIKGVTDKNYYTNSYHIPVGFPISIKEKINIEAPYHKICNGGHISYIELDDYPSEE
                     VIMDIIQYAYRNTNISYMGINFHIKYCRECGTYLGVEEEACNNCGSTNIQGISRVTGY
                     LSLDERFGSGKVAERADRTSNNSSHRKIYNA"
     misc_feature    115774..117885
                     /gene="nrdD"
                     /locus_tag="CLC_0141"
                     /note="anaerobic ribonucleoside triphosphate reductase;
                     Provisional; Region: PRK07111"
                     /db_xref="CDD:235937"
     misc_feature    115777..116049
                     /gene="nrdD"
                     /locus_tag="CLC_0141"
                     /note="ATP cone domain; Region: ATP-cone; pfam03477"
                     /db_xref="CDD:217585"
     misc_feature    116113..117825
                     /gene="nrdD"
                     /locus_tag="CLC_0141"
                     /note="Class III ribonucleotide reductase; Region:
                     RNR_III; cd01675"
                     /db_xref="CDD:153084"
     misc_feature    order(116239..116241,116245..116250,116338..116352,
                     116362..116364,116371..116376,116383..116385,
                     116500..116502,117427..117438,117445..117447)
                     /gene="nrdD"
                     /locus_tag="CLC_0141"
                     /note="effector binding site; other site"
                     /db_xref="CDD:153084"
     misc_feature    order(116278..116280,116419..116421,116659..116661,
                     116947..116952,117013..117015,117421..117423,
                     117430..117432)
                     /gene="nrdD"
                     /locus_tag="CLC_0141"
                     /note="active site"
                     /db_xref="CDD:153084"
     misc_feature    order(117724..117726,117733..117735,117766..117768,
                     117775..117777)
                     /gene="nrdD"
                     /locus_tag="CLC_0141"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:153084"
     misc_feature    117805..117819
                     /gene="nrdD"
                     /locus_tag="CLC_0141"
                     /note="glycine loop; other site"
                     /db_xref="CDD:153084"
     gene            117932..118447
                     /gene="nrdG"
                     /locus_tag="CLC_0142"
                     /db_xref="GeneID:5399748"
                     /db_xref="Pathema:CLC_0142"
     CDS             117932..118447
                     /gene="nrdG"
                     /locus_tag="CLC_0142"
                     /EC_number="1.17.4.2"
                     /note="identified by match to protein family HMM
                     TIGR02491"
                     /codon_start=1
                     /transl_table=11
                     /product="anaerobic ribonucleoside-triphosphate reductase
                     activating protein"
                     /protein_id="YP_001386053.1"
                     /db_xref="GI:153934804"
                     /db_xref="GeneID:5399748"
                     /db_xref="Pathema:CLC_0142"
                     /translation="MENKYLQVAGFLDNSLVNGLGLRSVVFVSGCKHNCKECQNKEMQ
                     SFCYGDKISLKDILKRIESNVPLIRGVTFSGGEPLEHIKELSSLAEEIKSLGLNIWCY
                     TGYTFEYIKKEINKNHDLKKLIESIDVLVDGKYDKSKKDSSLKYKGSSNQRIIDVNKS
                     LDRDEIVILDL"
     misc_feature    117980..118396
                     /gene="nrdG"
                     /locus_tag="CLC_0142"
                     /note="4Fe-4S single cluster domain; Region: Fer4_12;
                     pfam13353"
                     /db_xref="CDD:222066"
     misc_feature    117980..118393
                     /gene="nrdG"
                     /locus_tag="CLC_0142"
                     /note="anaerobic ribonucleotide reductase-activating
                     protein; Provisional; Region: nrdG; cl15804"
                     /db_xref="CDD:247076"
     gene            complement(118984..119658)
                     /locus_tag="CLC_0144"
                     /db_xref="GeneID:5399056"
                     /db_xref="Pathema:CLC_0144"
     CDS             complement(118984..119658)
                     /locus_tag="CLC_0144"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386055.1"
                     /db_xref="GI:153936731"
                     /db_xref="GeneID:5399056"
                     /db_xref="Pathema:CLC_0144"
                     /translation="MNNIKELVKSTNELSKSLNDANDETFTNITCYLRTSSLSESQCE
                     ESIHEILAMFLTAENNNESIENIIGNDSQKFCDEIIESYATKKFSKENVIVNLKIILS
                     CFFILWSINIVFDYIPNMIKSKSLLLNYNFSLPFIINTVLITFLSFAVFNYMGKTAFK
                     EESNKIFVIKFMLLYIIFIIISVFMWKKLSKIILFTTKIHYVLIFIAISYLILFLLSQ
                     YTYKQK"
     misc_feature    complement(<118996..119424)
                     /locus_tag="CLC_0144"
                     /note="MSEP-CTERM protein; Region: MSEP-CTERM; TIGR04286"
                     /db_xref="CDD:234534"
     gene            complement(119660..119998)
                     /locus_tag="CLC_0145"
                     /db_xref="GeneID:5399148"
                     /db_xref="Pathema:CLC_0145"
     CDS             complement(119660..119998)
                     /locus_tag="CLC_0145"
                     /note="identified by match to protein family HMM PF03551"
                     /codon_start=1
                     /transl_table=11
                     /product="PadR family transcriptional regulator"
                     /protein_id="YP_001386056.1"
                     /db_xref="GI:153936562"
                     /db_xref="GeneID:5399148"
                     /db_xref="Pathema:CLC_0145"
                     /translation="MNDKSQLLRGTLEGCILKIINDKETYGYEIAENLKLYGFKDISE
                     GTIYPLLIRLEKNNFLNSTKKPSPYGPKRKYYTLSEKGVEELNYFYTNWLELKNSVDK
                     IFSNYSKGED"
     misc_feature    complement(<119681..119983)
                     /locus_tag="CLC_0145"
                     /note="Predicted transcriptional regulators
                     [Transcription]; Region: COG1695"
                     /db_xref="CDD:224609"
     misc_feature    complement(119741..119953)
                     /locus_tag="CLC_0145"
                     /note="Transcriptional regulator PadR-like family; Region:
                     PadR; pfam03551"
                     /db_xref="CDD:217610"
     gene            complement(120119..120757)
                     /locus_tag="CLC_0146"
                     /db_xref="GeneID:5400421"
                     /db_xref="Pathema:CLC_0146"
     CDS             complement(120119..120757)
                     /locus_tag="CLC_0146"
                     /codon_start=1
                     /transl_table=11
                     /product="zinc-dependent hydrolase"
                     /protein_id="YP_001386057.1"
                     /db_xref="GI:153937324"
                     /db_xref="GeneID:5400421"
                     /db_xref="Pathema:CLC_0146"
                     /translation="MKIKWLGHSCFILESDTKTTIITDPYEPSIGIHRMDYASDICTI
                     SHNHFDHNFKDELNKNCIIIDTPIEYKYEDLKIKGFKSYHDKLNGLKRGNNIIFKFNI
                     DGFNVCHLGDLGHLLPKNFIYNLGPIDVLLVPIGGNYTLNGKEAATLCKNLNSHIVIP
                     MHFGLNNIKIKLDGLEDFLIHMDKNLEIGSNIITLENNIKNYNNMVYILNMI"
     misc_feature    complement(120266..120757)
                     /locus_tag="CLC_0146"
                     /note="Predicted Zn-dependent hydrolases of the
                     beta-lactamase fold [General function prediction only];
                     Region: COG2220"
                     /db_xref="CDD:225130"
     misc_feature    complement(120272..120754)
                     /locus_tag="CLC_0146"
                     /note="Beta-lactamase superfamily domain; Region:
                     Lactamase_B_3; pfam13483"
                     /db_xref="CDD:222167"
     gene            121199..124315
                     /gene="ileS"
                     /locus_tag="CLC_0147"
                     /db_xref="GeneID:5399270"
                     /db_xref="Pathema:CLC_0147"
     CDS             121199..124315
                     /gene="ileS"
                     /locus_tag="CLC_0147"
                     /EC_number="6.1.1.5"
                     /note="IleRS; catalyzes the formation of
                     isoleucyl-tRNA(Ile) from isoleucine and tRNA(Ile); since
                     isoleucine and other amino acids such as valine are
                     similar, there are additional editing function in this
                     enzyme; one is involved in hydrolysis of activated
                     valine-AMP and the other is involved in deacylation of
                     mischarged Val-tRNA(Ile); there are two active sites, one
                     for aminoacylation and one for editing; class-I
                     aminoacyl-tRNA synthetase type 2 subfamily; some organisms
                     carry two different copies of this enzyme; in some
                     organisms, the type 2 subfamily is associated with
                     resistance to the antibiotic pseudomonic acid (mupirocin)"
                     /codon_start=1
                     /transl_table=11
                     /product="isoleucyl-tRNA synthetase"
                     /protein_id="YP_001386058.1"
                     /db_xref="GI:153934659"
                     /db_xref="GeneID:5399270"
                     /db_xref="Pathema:CLC_0147"
                     /translation="MYNKIDSNKSFVQREKGIADLWKDRGVIEKSFNLNEDGEYFTFY
                     DGPPTANGKPHVGHILTRVMKDLIPRYKVMKGYKVLRKAGWDTHGLPVELEIEKKLGI
                     SGKPQIEEYGIEKFVTECKDSVFKYTSLWKQMSEQLGFWVDMDDPYITYDNNYIESVW
                     WALKQMWKKELLYKGHRVTPYCPRCGTALSSHEVAQGYKDVKEATAFVKFKIKGKENK
                     YFLAWTTTPWTLPSNVTLAINKSYDYVEILNNDEHYILAKELLGKVIEGEYEVVKEFK
                     GEEIVGVEYEQLFKFEVPEKKAFYVVHADYVTLTDGTGIVHTAPAYGDDDSKTGKKYD
                     LPLINLVDSEGKFVDSVEPWKGMFVKKADPKILEYLKENGMLYKSEKFTHSYPHCWRC
                     NTPLLYYPKDSWFVRMTSLRDDLVKNNNTINWYPDNIRTGRFGKFVENVIDWGISRDR
                     YWGTPLPIWECDCGHRECIGSVEELKEKGINVPENIELHKPYIDAVKLNCPHCGKEMT
                     RTNEVIDCWFDSGSMPFAQHHYPFENKEVFENTFPAQFISEAVDQTRGWFYTLLAIST
                     ALFGKSSYENCIVLGHVLDKHGLKMSKSKGNVVDPFDVLENEGADATRWHFYTASAPW
                     LPTRFSEEDVKETQRKFLSTLWNVYSFYILYADLDNFNPLEYKEFKSEHVMDKWILSK
                     LNSLIKNVEEHLDNYRITQAALELEEFVDELSNWYVRRNRSRFWSTELTDDKIGAYTT
                     LYTVLTTVIKVAAPFVPFVTEEMYQNLVVNLDKDAEESIHLCKWPSYNESTMDKDLEE
                     KMGLAYKIVKLGRSARNSVNIKNRQPLKKMLVSTKELPEYYEDIIREELNIKEILSGA
                     DLSDYVNFEIKPNLPILGKKYGKFIPAIRKEISSMNQMELAQSINNSRSVFINVEGCE
                     DQIELTAENLLVTMQGLEGFAFAGEGEIGVVLDTHITEELKEEGFLREILSKVQNMRK
                     ESGFEVADKINLYVSGNNTLNAIVKKYEDEIKVETLSVKVMYDENKDYIECKINGENY
                     NIAMEVVK"
     misc_feature    121199..124312
                     /gene="ileS"
                     /locus_tag="CLC_0147"
                     /note="isoleucyl-tRNA synthetase; Reviewed; Region: ileS;
                     PRK06039"
                     /db_xref="CDD:235681"
     misc_feature    121319..>121741
                     /gene="ileS"
                     /locus_tag="CLC_0147"
                     /note="catalytic core domain of isoleucyl-tRNA
                     synthetases; Region: IleRS_core; cd00818"
                     /db_xref="CDD:173909"
     misc_feature    121361..121372
                     /gene="ileS"
                     /locus_tag="CLC_0147"
                     /note="HIGH motif; other site"
                     /db_xref="CDD:173909"
     misc_feature    <122312..123085
                     /gene="ileS"
                     /locus_tag="CLC_0147"
                     /note="catalytic core domain of isoleucyl-tRNA
                     synthetases; Region: IleRS_core; cd00818"
                     /db_xref="CDD:173909"
     misc_feature    order(122495..122497,122747..122749,122756..122758,
                     122843..122857,122861..122863,122867..122869,
                     122936..122950,122960..122977,123074..123076)
                     /gene="ileS"
                     /locus_tag="CLC_0147"
                     /note="active site"
                     /db_xref="CDD:173909"
     misc_feature    122966..122980
                     /gene="ileS"
                     /locus_tag="CLC_0147"
                     /note="KMSKS motif; other site"
                     /db_xref="CDD:173909"
     misc_feature    123083..123631
                     /gene="ileS"
                     /locus_tag="CLC_0147"
                     /note="Anticodon-binding domain of archaeal, bacterial,
                     and eukaryotic cytoplasmic isoleucyl tRNA synthetases;
                     Region: Anticodon_Ia_Ile_ABEc; cd07961"
                     /db_xref="CDD:153415"
     misc_feature    order(123092..123094,123104..123106,123113..123115,
                     123128..123130,123137..123139,123146..123151,
                     123296..123298,123305..123310,123317..123322,
                     123329..123331,123341..123343,123353..123355,
                     123362..123364,123620..123622,123629..123631)
                     /gene="ileS"
                     /locus_tag="CLC_0147"
                     /note="tRNA binding surface [nucleotide binding]; other
                     site"
                     /db_xref="CDD:153415"
     misc_feature    order(123137..123139,123146..123148)
                     /gene="ileS"
                     /locus_tag="CLC_0147"
                     /note="anticodon binding site; other site"
                     /db_xref="CDD:153415"
     gene            124466..125464
                     /locus_tag="CLC_0148"
                     /db_xref="GeneID:5401640"
                     /db_xref="Pathema:CLC_0148"
     CDS             124466..125464
                     /locus_tag="CLC_0148"
                     /note="identified by match to protein family HMM PF00356;
                     match to protein family HMM PF00532"
                     /codon_start=1
                     /transl_table=11
                     /product="LacI family transcriptional regulator"
                     /protein_id="YP_001386059.1"
                     /db_xref="GI:153935392"
                     /db_xref="GeneID:5401640"
                     /db_xref="Pathema:CLC_0148"
                     /translation="MAVSIKDVAKEAQVSIATVSRVLNNIDVVNEDTKKKVLDAIDKL
                     GYRPNIVARSLKTQKSKTIGIIIPDISNQFYPEIVRGAEDVANIYDYNIMLCNTDLDP
                     EKEMEYLRVLREKMADGVLYMSNSLEKNILELIKSLQLPVVLVETKDSEEKLPSVTID
                     NLKASLDATEYLINKGNKNIAYIGLHEDMANAAVLRYEGYKLALRKNNIKENKDLVYL
                     GGMKVRDGYEGINKILEKEKIDAIFCADDEIAMGAINALRDKNIKVPDEIDVMGFNNI
                     YSSNVFYPKLTTIGQPMYDMGSVGMRMLIKIINKEELENDNYVLQHKIVERDSCKK"
     misc_feature    124472..125461
                     /locus_tag="CLC_0148"
                     /note="Transcriptional regulators [Transcription]; Region:
                     PurR; COG1609"
                     /db_xref="CDD:224525"
     misc_feature    124481..124636
                     /locus_tag="CLC_0148"
                     /note="Helix-turn-helix (HTH) DNA binding domain of the
                     LacI family of transcriptional regulators; Region:
                     HTH_LacI; cd01392"
                     /db_xref="CDD:143331"
     misc_feature    order(124481..124483,124505..124519,124523..124528,
                     124535..124537,124550..124555,124562..124564,
                     124601..124603,124610..124612,124619..124624,
                     124628..124633)
                     /locus_tag="CLC_0148"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:143331"
     misc_feature    124601..124630
                     /locus_tag="CLC_0148"
                     /note="domain linker motif; other site"
                     /db_xref="CDD:143331"
     misc_feature    124649..125452
                     /locus_tag="CLC_0148"
                     /note="Type 1 periplasmic binding fold superfamily;
                     Region: Periplasmic_Binding_Protein_Type_1; cl10011"
                     /db_xref="CDD:245225"
     gene            125680..129732
                     /locus_tag="CLC_0149"
                     /db_xref="GeneID:5400803"
                     /db_xref="Pathema:CLC_0149"
     CDS             125680..129732
                     /locus_tag="CLC_0149"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386060.1"
                     /db_xref="GI:153937141"
                     /db_xref="GeneID:5400803"
                     /db_xref="Pathema:CLC_0149"
                     /translation="MKCSEKIKNIFYYLLRIKRMNKCSSDVRTYEALYTKKDILNNSY
                     CNVSRDKEDNVTIKISKEAGKIYDKIYKQYLDGGNENEIILGQAILALRKNKNIIHPV
                     ITSKVKVDFIDKENVLSLKIPSNIKLEIEVCDCLNKTLFKKIISRKNDWEKEKIDIMN
                     YDNIKNKIQLLLNNDSEIVFKDIEDLNKIEITEEPVIYNCPILVIRKADNSLWSKEFQ
                     SIVEEIDNGYDIPKTIEALVEEKEIEDDYIHKDQWKECKEDILFPLDANEEQISIVKK
                     ICENEAILVQGPPGTGKSHTIANLICHFLAHGKKVLITSETSRALRVLINKIPKDIKP
                     LCVNLLDDNNGEYELEQCIKNISDNLCKNPSEIIDDIYILNNERKECKKNQQVLYNKL
                     KEIEFMENKKIHCKGNYYKLIHIGSWLNENEYKYGWIRDNIRYEDIKPVNEDQFNKLI
                     ELLKNNGKEYIGNINELIFICNKIPSYNEVENKLDRMIYLESNLNFYKNKIKGWYIPA
                     ECKCNYDILSDFLYDCIEKMKSIIEEPILGKMFELYYSSEIFRDSINNFMLNLNSSKE
                     KLIKIRENINQYSIEIKEIKDKDMFIKDYEKVYSKIKGKKKISKIFKAINSKYDYIFK
                     NCYINGENIKSIEQLNIINDYIEERKIYNFLNRLWENIINSYIQEDSNYNIDNLISIE
                     RITNNLDTIMNWNREYRDKIIKLLGRIRIPININWYEINTYEYFIQCIECIKAINEYN
                     DLKAFMEIIKKQVRNFQSLNSIIKGIDKENIDYIKEAYSYIEKIMSMKSDMDEINYVY
                     KKLEESCPRTLEFILENYKKNYKFNSWENAWKWAQYNNLFKKLEKIDEKTLQGQLIEE
                     KNKEKEIINQIISKKAWKNIILNINEEEKRSLFSWVQAVKRIGKGRGKFVLQYSNIAK
                     KEMEKCKSIIPVWIMPLEKVIENIKPSKEQFDVVIFDESSQSNIFAISALMRAKKAII
                     VGDDKQISPEIVGMDQGMISNFIDKYLDGIPHNQWFDLQTSLYDTALRTFKDRIMLKE
                     HFRSVPEIVQFSNKLCYGDLIVPLRYPKIREAFNSPIKCIKVEDGYREKTKQININEA
                     EALVNKLLECCRDSKYNGMTMGVISLLGDAQSEFIENLLKNNLSKEEIKRRKLVCGDA
                     YSFQGDERDIIFLSMVVGDNMKYTALTKETDIKRFNVAVSRARNQIFLFYSIDYKNIN
                     NDCVRYKLIDYCNNYKNYKSKLPDINYVMESKFQKDIYNNIRNLKCDIKSNIKLGKYI
                     IDFILEGEHNRIAIICDDGNLYENNNVEKVLNLEMDLTRLGWAFYKIRGSKFYRNPEV
                     EVEKLHKFLIESGLYKDDSKEILKNNLLVV"
     misc_feature    126478..>126882
                     /locus_tag="CLC_0149"
                     /note="AAA domain; Region: AAA_11; pfam13086"
                     /db_xref="CDD:221912"
     misc_feature    126526..>126651
                     /locus_tag="CLC_0149"
                     /note="Part of AAA domain; Region: AAA_19; pfam13245"
                     /db_xref="CDD:222005"
     misc_feature    <128509..129270
                     /locus_tag="CLC_0149"
                     /note="Superfamily I DNA and RNA helicases and helicase
                     subunits [DNA replication, recombination, and repair];
                     Region: COG1112"
                     /db_xref="CDD:224037"
     misc_feature    128755..129264
                     /locus_tag="CLC_0149"
                     /note="AAA domain; Region: AAA_12; pfam13087"
                     /db_xref="CDD:221913"
     gene            129807..130874
                     /locus_tag="CLC_0150"
                     /db_xref="GeneID:5398431"
                     /db_xref="Pathema:CLC_0150"
     CDS             129807..130874
                     /locus_tag="CLC_0150"
                     /note="identified by match to protein family HMM PF00483"
                     /codon_start=1
                     /transl_table=11
                     /product="mannose-1-phosphate
                     guanylyltransferase/mannose-6-phosphate isomerase"
                     /protein_id="YP_001386061.1"
                     /db_xref="GI:153936480"
                     /db_xref="GeneID:5398431"
                     /db_xref="Pathema:CLC_0150"
                     /translation="MLYALILAGGKGTRLYPLSRSENPKQFLKVINNRSFLRATVDRI
                     KPLVNNDNIYIVTNEEYMDKIYEELPEIKKENIFAEPYNRETATCIGFSAVKLLKKDK
                     DASMIVLPSDHYIENEKEFTDVIKQGVDIVEKKRGLVTIGIKPLRPETGYGYIKMGDK
                     VNSQSFTYKVERFLEKPNLEIARDLVSSEEYLWNSGMFIWRADVYLREMEKYLPKIYK
                     SMMRIYANIDTDQEEKVIREEYEVIEGISVDFGIMQKTRKAYVIESNFKWDDMGSFTA
                     LSRFLNSCRDNSICSNSYLKESENCSVITKDKLVIGFGIKDLVIVDGGDVLLIMDKYK
                     DQEIKHLVQELKANESLKKYI"
     misc_feature    129807..130799
                     /locus_tag="CLC_0150"
                     /note="Mannose-1-phosphate guanylyltransferase [Cell
                     envelope biogenesis, outer membrane]; Region: {ManC};
                     COG0836"
                     /db_xref="CDD:223906"
     misc_feature    129810..130637
                     /locus_tag="CLC_0150"
                     /note="GDP-M1P_Guanylyltransferase catalyzes the formation
                     of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase;
                     cd02509"
                     /db_xref="CDD:133003"
     misc_feature    order(129825..129827,129831..129833,130140..130142)
                     /locus_tag="CLC_0150"
                     /note="Substrate binding site; other site"
                     /db_xref="CDD:133003"
     misc_feature    130746..>130853
                     /locus_tag="CLC_0150"
                     /note="Cupin domain; Region: Cupin_2; cl17218"
                     /db_xref="CDD:247772"
     gene            131210..132499
                     /locus_tag="CLC_0151"
                     /db_xref="GeneID:5398619"
                     /db_xref="Pathema:CLC_0151"
     CDS             131210..132499
                     /locus_tag="CLC_0151"
                     /note="identified by match to protein family HMM PF01969;
                     match to protein family HMM TIGR00299"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386062.1"
                     /db_xref="GI:153937649"
                     /db_xref="GeneID:5398619"
                     /db_xref="Pathema:CLC_0151"
                     /translation="MRKILYYDCFSGISGDMNLGALIDLGVDKEYLLKELAKLNINDE
                     FEIKINKDSRKGISGTKVDVILKNLHEHNHEHEHSHDYVHSRGHEHEHNHEHSHEHEH
                     NHAHDHRNVININKIIDNSNLNDNVKKISKEIFLEVAKAEGKVHNKPLEEVHFHEVGA
                     TDSIVDIVGAAICLDYLKVDKVLCSKVQVGSGFVKCAHGTMPVPAPATAEILKDIPMV
                     SSEEIPFEATTPTGAAIVASTVYKFTQNKNFYIEKVGYGIGGKDLSDIPNVLRVFLAE
                     VKEQEENDIEKEEALILECNIDDMNSEIYEYVINKLLHEGASDAYITPIIMKKTRPAA
                     KLTVLCENKLENIMREIIFKETTTLGIRKYSVEKSMLKRKIEKVKTIYGEISVKKSYL
                     KGQVLNSKPEYEDCKKIALENNIPIKEVYEAVNERKE"
     misc_feature    131216..132487
                     /locus_tag="CLC_0151"
                     /note="hypothetical protein; Provisional; Region:
                     PRK04194"
                     /db_xref="CDD:235249"
     gene            132504..133310
                     /locus_tag="CLC_0152"
                     /db_xref="GeneID:5400340"
                     /db_xref="Pathema:CLC_0152"
     CDS             132504..133310
                     /locus_tag="CLC_0152"
                     /note="identified by match to protein family HMM PF01171;
                     match to protein family HMM PF06508; match to protein
                     family HMM TIGR00268"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386063.1"
                     /db_xref="GI:153934535"
                     /db_xref="GeneID:5400340"
                     /db_xref="Pathema:CLC_0152"
                     /translation="MNINDKYNNLINYLKDLKSVAVAFSGGVDSTLLLKSAKEALGDN
                     AISITIVSPYIPKWEIREARELVDKIGIKSYFVEVPMLEEIRSNPEDRCYICKKSVFN
                     KIKDLAREKGIKYIVDGTNADDTKDYRPGMRALKELDVKSPLLDNSINKEEIRVLSKE
                     LQLDTWDKPAYACLLSRIPYNQKIKEKDLDRIEKAEVYMMKLGFRAVRVRSHGNLARI
                     EVPQKERVKLFNEDILDKISKELKELGFKYVTVDIEGYKMGSLNAEINMK"
     misc_feature    132504..133301
                     /locus_tag="CLC_0152"
                     /note="ATP-utilizing enzymes of the PP-loop superfamily
                     [General function prediction only]; Region: COG1606"
                     /db_xref="CDD:224522"
     misc_feature    132561..133160
                     /locus_tag="CLC_0152"
                     /note="This is a subfamily of Adenine nucleotide alpha
                     hydrolases superfamily. Adenine nucleotide alpha
                     hydrolases superfamily  includes N type ATP PPases and ATP
                     sulphurylases. It forms a apha/beta/apha fold which  binds
                     to Adenosine group.  This subfamily; Region:
                     Alpha_ANH_like_I; cd01990"
                     /db_xref="CDD:238948"
     misc_feature    order(132570..132578,132582..132593,132648..132650,
                     132654..132656)
                     /locus_tag="CLC_0152"
                     /note="Ligand Binding Site [chemical binding]; other site"
                     /db_xref="CDD:238948"
     gene            133330..134076
                     /locus_tag="CLC_0153"
                     /db_xref="GeneID:5401541"
                     /db_xref="Pathema:CLC_0153"
     CDS             133330..134076
                     /locus_tag="CLC_0153"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386064.1"
                     /db_xref="GI:153935717"
                     /db_xref="GeneID:5401541"
                     /db_xref="Pathema:CLC_0153"
                     /translation="MNTEDIKKLLLDIKSDKISLEDGVDILQDLPFKDLGYAKIDNHR
                     EMRVGYPEVIYCAGKTVDQIKGIIEFMLTKENNILGTRATKEAYEEVKKICPEAEYDE
                     LARTIVIKKREVKSKGGYIAVVTAGTSDIPVSEEAAVTAEIFGNKVERIYDVGVAGIH
                     RLFDKLELIRGARVIVVAAGMEGALASVVGGLVDKPVIAVPTSIGYGANFQGLSALLS
                     MLNSCASGVSVVNIDNGFGAGYLASMINNL"
     misc_feature    133408..134073
                     /locus_tag="CLC_0153"
                     /note="NCAIR mutase (PurE)-related proteins [General
                     function prediction only]; Region: COG1691"
                     /db_xref="CDD:224605"
     misc_feature    133684..134064
                     /locus_tag="CLC_0153"
                     /note="AIR carboxylase; Region: AIRC; smart01001"
                     /db_xref="CDD:214965"
     gene            134301..135683
                     /locus_tag="CLC_0154"
                     /db_xref="GeneID:5398319"
                     /db_xref="Pathema:CLC_0154"
     CDS             134301..135683
                     /locus_tag="CLC_0154"
                     /note="identified by match to protein family HMM PF04055"
                     /codon_start=1
                     /transl_table=11
                     /product="radical SAM domain-containing protein"
                     /protein_id="YP_001386065.1"
                     /db_xref="GI:153935988"
                     /db_xref="GeneID:5398319"
                     /db_xref="Pathema:CLC_0154"
                     /translation="MKVIKLLEKSAKDKMIKTAAGLLSTNPEKNVDRLFTLIEKTIAK
                     DEDNLKRLKVVEDEYHNNPSTHEFVQNLFKTTDKNCIQKFFTNFFANAVWYGMPKREK
                     LFKEDGIKTPFVILISPSMRCNLRCTGCYAANYSKEDDIPYEEVDRIIEEAREIGIYY
                     FIVLGGEPFFNEYMLDIYEKYNDCIFMPFTNGTLFNEKLADKVQKLGNIIPMFSLEGF
                     EKETDARRGKGVFKQVMHGMDLLRERGVLFGVSTATGRNNIDTVISDEFINMLIEKGA
                     KMSWYFIFMPVGEDPDFNLMLTPEQRIYLGKEVRKIRNEKPYFAIDFFNDAPYVGGCI
                     AGKYYCHINSHEDVEPCIFAHFATDNLKNKKLIDVFKSPFFKELRDRQPYNDNLLKPC
                     MMIDNPKVIREVASKTGARPTDKGAEMMLHDEVFKSKLDKLAKDFDPLAEKAWKEDFH
                     GKGNYEMSKG"
     misc_feature    134637..135215
                     /locus_tag="CLC_0154"
                     /note="Elongator protein 3, MiaB family, Radical SAM;
                     Region: Elp3; smart00729"
                     /db_xref="CDD:214792"
     misc_feature    134649..135191
                     /locus_tag="CLC_0154"
                     /note="Radical SAM superfamily. Enzymes of this family
                     generate radicals by combining a 4Fe-4S cluster and
                     S-adenosylmethionine (SAM) in close proximity. They are
                     characterized by a conserved CxxxCxxC motif, which
                     coordinates the conserved iron-sulfur cluster; Region:
                     Radical_SAM; cd01335"
                     /db_xref="CDD:100105"
     misc_feature    order(134667..134669,134673..134675,134679..134681,
                     134685..134693,134790..134792,134796..134801,
                     134868..134873,134940..134942,135057..135059,
                     135156..135161)
                     /locus_tag="CLC_0154"
                     /note="FeS/SAM binding site; other site"
                     /db_xref="CDD:100105"
     gene            135870..137144
                     /locus_tag="CLC_0155"
                     /db_xref="GeneID:5400662"
                     /db_xref="Pathema:CLC_0155"
     CDS             135870..137144
                     /locus_tag="CLC_0155"
                     /note="identified by match to protein family HMM PF01547"
                     /codon_start=1
                     /transl_table=11
                     /product="sugar-binding protein"
                     /protein_id="YP_001386066.1"
                     /db_xref="GI:153937177"
                     /db_xref="GeneID:5400662"
                     /db_xref="Pathema:CLC_0155"
                     /translation="MKKKKFIYIGIVVILIVAIILVILGRYNNTKNFTKDKLVIWGDV
                     KNNQAMNEGVKAFKEKYPNVEVEFYNKNRENMIDEFSKIKDKNSYPNIICLDDKDIKE
                     FGARYYKDLIILNEIMKNNIKDFISCKRELVKLYDNFIAVPYTVEPVALYYRKDLLEK
                     YNINSEDIKTWDDFIKAGEEIYKKSNGKVKMISFNKSDNSMLEVLLNEKGIYYFDKDS
                     KLQIDQPGYIDAFNILKRIESSNIDFDNKGDFKLFVNNSNVVCIPYNSELANHLISGR
                     KQENGKWKIMKLPSFEVGGKNSAIAGGTSIVGIKSCKESKDKLSMELIKNIALNKQSL
                     NKGFLNYGQFPSYKPTYEYARFFQNVNYFNEEKIWRVFVDIASKAPSINYTKNYNSVQ
                     KIMTDFKKELLNSNDVEKELKNIKIFINSITK"
     misc_feature    135990..137141
                     /locus_tag="CLC_0155"
                     /note="ABC-type sugar transport system, periplasmic
                     component [Carbohydrate transport and metabolism]; Region:
                     UgpB; COG1653"
                     /db_xref="CDD:224567"
     gene            complement(137246..138361)
                     /locus_tag="CLC_0156"
                     /db_xref="GeneID:5400968"
                     /db_xref="Pathema:CLC_0156"
     CDS             complement(137246..138361)
                     /locus_tag="CLC_0156"
                     /note="identified by match to protein family HMM PF00534"
                     /codon_start=1
                     /transl_table=11
                     /product="mannosyltransferase"
                     /protein_id="YP_001386067.1"
                     /db_xref="GI:153935068"
                     /db_xref="GeneID:5400968"
                     /db_xref="Pathema:CLC_0156"
                     /translation="MNISIDGRGINWYKGTGIGTYTEKVLTNMIGKTTEDSFNIYWSG
                     DDYLKFKKHNTNIILTSKKHSKFFEQTYIPYDLNNINSDIYHIPQNGIGISENISCKI
                     IVTIHDLIPYIMPETVGKGYLNKFLKDMPRIIELSDKIITVSEWSKKDILKFFPMRED
                     KIEVIPLAADSKYRPLNKLYCKNILKKKYGINLPYILYLGGFSSRKNVDSIIKAFEKI
                     YAKLPQEHALVIVGSKKDEGEKLYEFSSKLKISSNIIFTDFVEEQDLPIFYNGCSVFI
                     YPSLYEGFGLPPLEAMSCGCAVIASNVTSIPEVTSDCCINIDPLDIDDMSNSIENILK
                     NPDLKDTLSKKAFERSMLFSWSKTAENTLNLYKSVLK"
     misc_feature    complement(137273..138358)
                     /locus_tag="CLC_0156"
                     /note="This family is most closely related to the GT1
                     family of glycosyltransferases. mtfB (mannosyltransferase
                     B) in E. coli has been shown to direct the growth of the
                     O9-specific polysaccharide chain. It transfers two
                     mannoses into the position 3 of the...; Region:
                     GT1_mtfB_like; cd03809"
                     /db_xref="CDD:99981"
     misc_feature    complement(137264..138313)
                     /locus_tag="CLC_0156"
                     /note="glycosyltransferase, GG-Bacteroidales peptide
                     system; Region: glyco_rSAM_CFB; TIGR04157"
                     /db_xref="CDD:234487"
     gene            138527..139537
                     /locus_tag="CLC_0157"
                     /db_xref="GeneID:5398617"
                     /db_xref="Pathema:CLC_0157"
     CDS             138527..139537
                     /locus_tag="CLC_0157"
                     /note="identified by match to protein family HMM
                     TIGR02906"
                     /codon_start=1
                     /transl_table=11
                     /product="spore coat protein"
                     /protein_id="YP_001386068.1"
                     /db_xref="GI:153936541"
                     /db_xref="GeneID:5398617"
                     /db_xref="Pathema:CLC_0157"
                     /translation="MDKSEIISIVENNYNININSIEKIKNVYKIISDSNKTYAFKIIK
                     YEFNHFLFIISCMKHLQYNNFSKIPQIIPNNKGLDYIKIGDFYGYITEWIEGSRQCNY
                     SNPVEVMMAANKLGQLHEKSKNFYITENMKPRIGWFKWPKTFQTRKDEILDFEKRILN
                     KNKKSEFDNFYINILEDEIERADRSIKNLCETNYLNVMLRQIEDRCFCHHDYANHNIL
                     IDSENQIYIIDFDYCMLDTKLHDLASILIRVMKNGKWDLKSAELILNSYRKESYIDKE
                     SIPIIAAFMEFPQDYWQIGIQHYWEKQPWSEEFFFNKLNRYHEDREERQEFIEKFRRI
                     NI"
     misc_feature    138608..139519
                     /locus_tag="CLC_0157"
                     /note="spore coat protein, CotS family; Region:
                     spore_CotS; TIGR02906"
                     /db_xref="CDD:131952"
     misc_feature    <139118..139282
                     /locus_tag="CLC_0157"
                     /note="Aminoglycoside 3'-phosphotransferase (APH) and
                     Choline Kinase (ChoK) family. The APH/ChoK family is part
                     of a larger superfamily that includes the catalytic
                     domains of other kinases, such as the typical
                     serine/threonine/tyrosine protein kinases (PKs)...;
                     Region: APH_ChoK_like; cd05120"
                     /db_xref="CDD:240159"
     misc_feature    order(139157..139159,139268..139270)
                     /locus_tag="CLC_0157"
                     /note="substrate binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:240159"
     gene            139552..139746
                     /locus_tag="CLC_0158"
                     /db_xref="GeneID:5401059"
                     /db_xref="Pathema:CLC_0158"
     CDS             139552..139746
                     /locus_tag="CLC_0158"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386069.1"
                     /db_xref="GI:153937436"
                     /db_xref="GeneID:5401059"
                     /db_xref="Pathema:CLC_0158"
                     /translation="MSRKKKYYEDIKENMSELDKYEEELQELKKSVKKLKEIKKRKKK
                     INKLKDEEKEVLKKIRKKYK"
     gene            139773..140540
                     /locus_tag="CLC_0159"
                     /db_xref="GeneID:5400565"
                     /db_xref="Pathema:CLC_0159"
     CDS             139773..140540
                     /locus_tag="CLC_0159"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386070.1"
                     /db_xref="GI:153937527"
                     /db_xref="GeneID:5400565"
                     /db_xref="Pathema:CLC_0159"
                     /translation="MDSLKKITDISHYLKSKDINIIKDFKDDNRELDNLSEELVIEQL
                     RIISLFHKNTLGNKSYIRGGIKNKTGSIVEKYKLDLKKINKYIRSLKDKEINNTDLEK
                     LILDYMPNYINRAEKVIENIYENGYINLVWRSMDRKEICLGKTYFNNIRYNKGIEVID
                     INKCSYNMVEMDCIELLYKVNKKNSSVDIERLCKIFCEFESLNDESYKFILYMLSYPY
                     SLIKCCTKYMKEKDSDKEKHYMDRFNKAMKLDSNSFV"
     misc_feature    <139965..140522
                     /locus_tag="CLC_0159"
                     /note="spore coat protein, CotS family; Region:
                     spore_CotS; TIGR02906"
                     /db_xref="CDD:131952"
     gene            140553..141566
                     /locus_tag="CLC_0160"
                     /db_xref="GeneID:5399640"
                     /db_xref="Pathema:CLC_0160"
     CDS             140553..141566
                     /locus_tag="CLC_0160"
                     /note="identified by match to protein family HMM
                     TIGR02906"
                     /codon_start=1
                     /transl_table=11
                     /product="spore coat protein"
                     /protein_id="YP_001386071.1"
                     /db_xref="GI:153935309"
                     /db_xref="GeneID:5399640"
                     /db_xref="Pathema:CLC_0160"
                     /translation="MDKLNKNYLKKYNLSSDLFDQYDFIIKDIYPIRNVYIIDTSKGK
                     KILKKVNYTVEELKFIEEIIDYIKIGFKRIMDFEKNIQGDIYTIYKGEMYCLMDLIDG
                     RECQFSNPLDLKISSVALAQMHKASKGFTTNFNKRVLNGKSIEKFKIQKEEMNFFKKI
                     ANIHKNKNEFDDLFLSEIDSYIDEISKSINILENSHYYDICKENDKISICHHDLAYHN
                     ILIKEDEAYFIDFDYAILDLKVNDLCNFITKVIKNFAFDINKANIILNSYSSIYSITD
                     KELEVLYGLLSFPYDFYDISKNYYTKRKDWEDEVFLNRLIKKCNYKEDRKEFLKNFKD
                     NIL"
     misc_feature    140628..141548
                     /locus_tag="CLC_0160"
                     /note="spore coat protein, CotS family; Region:
                     spore_CotS; TIGR02906"
                     /db_xref="CDD:131952"
     misc_feature    <141165..141311
                     /locus_tag="CLC_0160"
                     /note="Aminoglycoside 3'-phosphotransferase (APH) and
                     Choline Kinase (ChoK) family. The APH/ChoK family is part
                     of a larger superfamily that includes the catalytic
                     domains of other kinases, such as the typical
                     serine/threonine/tyrosine protein kinases (PKs)...;
                     Region: APH_ChoK_like; cd05120"
                     /db_xref="CDD:240159"
     misc_feature    order(141189..141191,141297..141299)
                     /locus_tag="CLC_0160"
                     /note="substrate binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:240159"
     gene            complement(141921..143048)
                     /locus_tag="CLC_0161"
                     /db_xref="GeneID:5398244"
                     /db_xref="Pathema:CLC_0161"
     CDS             complement(141921..143048)
                     /locus_tag="CLC_0161"
                     /EC_number="2.4.1.-"
                     /note="identified by match to protein family HMM PF00534"
                     /codon_start=1
                     /transl_table=11
                     /product="glycoside hydrolase family protein"
                     /protein_id="YP_001386072.1"
                     /db_xref="GI:153934675"
                     /db_xref="GeneID:5398244"
                     /db_xref="Pathema:CLC_0161"
                     /translation="MRIGIDGRPAYWYRGTGIGTYTYQLISSLNKVDKKNDYLIFNPE
                     FSNSPLKLNNNFNIKNINAHSPKNFWNEVNIPAILKNNSMDIYHVPQNGVGLPKNKNC
                     KFIITLHDVIPYRMPETVSDRYLKIFSEEIPKIVSSADGIITVSDFSKKDIMKSFNYP
                     EDKIFVTHLASEDIYMPLNKEFCRNILKMKYNINKNFILYVGGFSPRKNILGLIDAFY
                     NLINIYKKDISLVIVGRKGKIYEKYIERVRELNMEDKVFFPGFISVKDLPYFYNCAEI
                     FVYPSFYEGFGLPPIEAMACGTPVITSNVTSIPEITKDAAMLINPYDTDSICKAMYTA
                     LSNENMKNILIKRGLNRTSQLTWNNCAKSTLLAYKKILCSN"
     misc_feature    complement(141933..143048)
                     /locus_tag="CLC_0161"
                     /note="Glycosyltransferase [Cell envelope biogenesis,
                     outer membrane]; Region: RfaG; COG0438"
                     /db_xref="CDD:223515"
     misc_feature    complement(141954..143045)
                     /locus_tag="CLC_0161"
                     /note="This family is most closely related to the GT1
                     family of glycosyltransferases. mtfB (mannosyltransferase
                     B) in E. coli has been shown to direct the growth of the
                     O9-specific polysaccharide chain. It transfers two
                     mannoses into the position 3 of the...; Region:
                     GT1_mtfB_like; cd03809"
                     /db_xref="CDD:99981"
     gene            143165..144169
                     /gene="cotS"
                     /locus_tag="CLC_0162"
                     /db_xref="GeneID:5400251"
                     /db_xref="Pathema:CLC_0162"
     CDS             143165..144169
                     /gene="cotS"
                     /locus_tag="CLC_0162"
                     /note="identified by match to protein family HMM
                     TIGR02906"
                     /codon_start=1
                     /transl_table=11
                     /product="spore coat protein CotS"
                     /protein_id="YP_001386073.1"
                     /db_xref="GI:153935800"
                     /db_xref="GeneID:5400251"
                     /db_xref="Pathema:CLC_0162"
                     /translation="MMREFEIERQFNIKIEKLKPHRGVYHLKTNEGDRCLKKINYGVQ
                     KLLFVSGAKEHLMKNGFDYVDNYFLNLNEEPYALVNEDIYTLSEWIEGRECNFRDKED
                     LISAARALAYLHIASKGYEPPENSKLKTDLGRWPNLMKKRVRSLDKMREMIRKNNNKT
                     DFDLSYIKNIEFYKELGKRSMKVLEDSAYMEICKKTEEEKSFCHHDYTYHNIIIDKND
                     TINVIDFDYCKREIKTYDISNFMIKVLKRVDWNIEYAELILNSYTAINPLKEEEYRTL
                     FAFLLFPQRFWRLSNRYYYNEVTWPSNTFNKKMEELISEKDKYINFIEEFKKIYSQKE
                     "
     misc_feature    143201..144142
                     /gene="cotS"
                     /locus_tag="CLC_0162"
                     /note="spore coat protein, CotS family; Region:
                     spore_CotS; TIGR02906"
                     /db_xref="CDD:131952"
     misc_feature    143201..>143497
                     /gene="cotS"
                     /locus_tag="CLC_0162"
                     /note="Aminoglycoside 3'-phosphotransferase (APH) and
                     Choline Kinase (ChoK) family. The APH/ChoK family is part
                     of a larger superfamily that includes the catalytic
                     domains of other kinases, such as the typical
                     serine/threonine/tyrosine protein kinases (PKs)...;
                     Region: APH_ChoK_like; cl17270"
                     /db_xref="CDD:247824"
     misc_feature    order(143222..143224,143234..143236,143267..143269,
                     143273..143275,143381..143383,143423..143434)
                     /gene="cotS"
                     /locus_tag="CLC_0162"
                     /note="active site"
                     /db_xref="CDD:240159"
     misc_feature    order(143234..143236,143267..143269,143273..143275,
                     143381..143383,143423..143434)
                     /gene="cotS"
                     /locus_tag="CLC_0162"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:240159"
     misc_feature    <143762..143905
                     /gene="cotS"
                     /locus_tag="CLC_0162"
                     /note="Aminoglycoside 3'-phosphotransferase (APH) and
                     Choline Kinase (ChoK) family. The APH/ChoK family is part
                     of a larger superfamily that includes the catalytic
                     domains of other kinases, such as the typical
                     serine/threonine/tyrosine protein kinases (PKs)...;
                     Region: APH_ChoK_like; cd05120"
                     /db_xref="CDD:240159"
     misc_feature    order(143780..143782,143891..143893)
                     /gene="cotS"
                     /locus_tag="CLC_0162"
                     /note="substrate binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:240159"
     gene            144293..145195
                     /locus_tag="CLC_0163"
                     /db_xref="GeneID:5399258"
                     /db_xref="Pathema:CLC_0163"
     CDS             144293..145195
                     /locus_tag="CLC_0163"
                     /note="identified by match to protein family HMM PF05582;
                     match to protein family HMM TIGR02855"
                     /codon_start=1
                     /transl_table=11
                     /product="peptidase"
                     /protein_id="YP_001386074.1"
                     /db_xref="GI:153936938"
                     /db_xref="GeneID:5399258"
                     /db_xref="Pathema:CLC_0163"
                     /translation="MEIGDIVVRKSYKKDITFKIIDIKQEQGREIYTLKGVNVRIIAD
                     SPYEDLEEVSVATMTKKEEVFTSKVNDSIKKILDDRKFRGGDKGKHLNKKSKIEKMYR
                     TNKNIKTKELYFGRPGKILHIDGDSEYLDTCLKVYKQLQLDVVGEKVLEKEQPDKILS
                     LVKLYKPDIVVITGHDAVLKEAENYTDINNYRNSKYFVKTVGVLRDYERNYDDLIIFA
                     GACQSCYEAILDAGANYASSPGRVLIHCLDPVFLCEKIAYTNISNIVSIEDALENTIT
                     GIKGIGGLQTRGKYREGFPKSEYV"
     misc_feature    144293..145189
                     /locus_tag="CLC_0163"
                     /note="YabG peptidase U57; Region: Peptidase_U57;
                     pfam05582"
                     /db_xref="CDD:147641"
     gene            145391..145627
                     /locus_tag="CLC_0164"
                     /db_xref="GeneID:5399920"
                     /db_xref="Pathema:CLC_0164"
     CDS             145391..145627
                     /locus_tag="CLC_0164"
                     /note="identified by match to protein family HMM PF06257"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386075.1"
                     /db_xref="GI:153937346"
                     /db_xref="GeneID:5399920"
                     /db_xref="Pathema:CLC_0164"
                     /translation="MERKNVIANIKRDIESHVGERVTLKANGGRRKTFVNEGVLEEAY
                     PSIFVIRLEDDTQRKVTYSYSDVLTKTVQLDFVL"
     misc_feature    145400..145618
                     /locus_tag="CLC_0164"
                     /note="Protein of unknown function (DUF1021); Region:
                     DUF1021; pfam06257"
                     /db_xref="CDD:218961"
     gene            145731..147293
                     /locus_tag="CLC_0165"
                     /db_xref="GeneID:5399766"
                     /db_xref="Pathema:CLC_0165"
     CDS             145731..147293
                     /locus_tag="CLC_0165"
                     /note="identified by match to protein family HMM PF01476"
                     /codon_start=1
                     /transl_table=11
                     /product="LysM domain-containing protein"
                     /protein_id="YP_001386076.1"
                     /db_xref="GI:153935078"
                     /db_xref="GeneID:5399766"
                     /db_xref="Pathema:CLC_0165"
                     /translation="MDLNLLKENIECEQLLGENFVNTPVKGEYVIPDTHPDVYEVLML
                     DAKPYITSKEVMQDKLYMEGYIDYNILYLAKEEEKGVLYNTRYSSKFSNDIQISGTEK
                     DMLCEAECFVEDMYCKIVNERKISIEGIVRLKGAVYKKYNFEIIKDLDALQDIQMLRN
                     PISIDKIAGTATGELLVKTSVKIGADKPEIGSILKTNLNIHKKKITVLDDKVNVEAFA
                     KIELIYRAKESRDICYVVDDIFIDKEVELKGVNSFMESYTDFTVDGINTEPKEDDLGE
                     SRIIDVEALVKSNTRVMYKKEIEVIEDMYSPNMLLNMNKEDYELNVMQGHSKNESIVK
                     ENIEIASSMPSIREIIMTEGKAYITEKKIVEDKVVVEGILNAEVMYKTTEDGKYIYNL
                     KEDIPFSCAVDIPGAKIDMQCMTKVVLEDVEANIEANTVAVKALIEVYSRVNYTSHKE
                     FLVNVEPMEEEVPEKKSSITIYVVQQGDTLWKIAKRYYTTVDNLVLINEIDNPDVIKP
                     GQKLIIPGKAII"
     misc_feature    145836..146099
                     /locus_tag="CLC_0165"
                     /note="Domain of unknown function (DUF3794); Region:
                     DUF3794; pfam12673"
                     /db_xref="CDD:221702"
     misc_feature    146292..146549
                     /locus_tag="CLC_0165"
                     /note="Domain of unknown function (DUF3794); Region:
                     DUF3794; pfam12673"
                     /db_xref="CDD:221702"
     misc_feature    146760..147008
                     /locus_tag="CLC_0165"
                     /note="Domain of unknown function (DUF3794); Region:
                     DUF3794; pfam12673"
                     /db_xref="CDD:221702"
     misc_feature    147138..147272
                     /locus_tag="CLC_0165"
                     /note="Lysine Motif is a small domain involved in binding
                     peptidoglycan; Region: LysM; cd00118"
                     /db_xref="CDD:212030"
     gene            147590..147703
                     /locus_tag="CLC_0166"
                     /db_xref="GeneID:5399443"
                     /db_xref="Pathema:CLC_0166"
     CDS             147590..147703
                     /locus_tag="CLC_0166"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386077.1"
                     /db_xref="GI:153936295"
                     /db_xref="GeneID:5399443"
                     /db_xref="Pathema:CLC_0166"
                     /translation="MLYRAFLCIKIVYVEKIKDIYKRKGYVFCKEKYKVTS"
     gene            147673..148473
                     /gene="cphB"
                     /locus_tag="CLC_0167"
                     /db_xref="GeneID:5399664"
                     /db_xref="Pathema:CLC_0167"
     CDS             147673..148473
                     /gene="cphB"
                     /locus_tag="CLC_0167"
                     /EC_number="3.-.-.-"
                     /note="identified by match to protein family HMM PF03575;
                     match to protein family HMM TIGR02069"
                     /codon_start=1
                     /transl_table=11
                     /product="cyanophycinase"
                     /protein_id="YP_001386078.1"
                     /db_xref="GI:153937052"
                     /db_xref="GeneID:5399664"
                     /db_xref="Pathema:CLC_0167"
                     /translation="MQRKIQGNLIIIGGAEDKKNGKDILKEVCKKIDKEKEELLIATV
                     ASELPEELGEEYTNIFKNLGVKNVKILNINNRKDTHYEGNVNLIKNASLIFFTGGDQL
                     RITSLLGGTPLYRALERAYKEGCIFVGTSAGASVMSDTMIVSGLDDESPRKCTLKMAP
                     GLSLIRGVIIDQHFAQRGRIGRLLTGIAENPQWLGIGIDEDTAIIVNPEGQFKVIGSG
                     AVYIIDGTEISGTNVSEQYPDEILSIFDVKLHVLKNRDKFDLNYRRPI"
     misc_feature    147694..148344
                     /gene="cphB"
                     /locus_tag="CLC_0167"
                     /note="Type 1 glutamine amidotransferase (GATase1)-like
                     domain found in cyanophycinase; Region:
                     GAT1_cyanophycinase; cd03145"
                     /db_xref="CDD:153239"
     misc_feature    order(148063..148065,148189..148191,148270..148272)
                     /gene="cphB"
                     /locus_tag="CLC_0167"
                     /note="proposed catalytic triad [active]"
                     /db_xref="CDD:153239"
     misc_feature    148063..148065
                     /gene="cphB"
                     /locus_tag="CLC_0167"
                     /note="active site nucleophile [active]"
                     /db_xref="CDD:153239"
     gene            148517..151138
                     /gene="cphA"
                     /locus_tag="CLC_0168"
                     /db_xref="GeneID:5399704"
                     /db_xref="Pathema:CLC_0168"
     CDS             148517..151138
                     /gene="cphA"
                     /locus_tag="CLC_0168"
                     /EC_number="6.-.-.-"
                     /note="catalyze the formation of cyanophycin which may act
                     to store excess nitrogen"
                     /codon_start=1
                     /transl_table=11
                     /product="cyanophycin synthetase"
                     /protein_id="YP_001386079.1"
                     /db_xref="GI:153935877"
                     /db_xref="GeneID:5399704"
                     /db_xref="Pathema:CLC_0168"
                     /translation="MKIENIRVFEGRNIYSHKKCIRMDVDLEGYSNISSKEIQEFNKT
                     LLNYVPELREHCCCVGKKGGFVERLYEGTYLSHICEHVIIALQNRIGIDVSYGKAREI
                     EGEKYYIIYQYKYKNMAIECGKIAVDLINNIINGKRYNIKTKTRELVCLLKTEELGPS
                     TLSIIQEAKKRNIPVTKIGEDSMFQLGYGIKGKTIEATICNSTSAVSVDIACDKLLSK
                     NILMDQCIPVAEGYKVKNYIDLLFKAEKLGYPVVLKPRFGNQGKGVVVNIKNQKELVN
                     AYSIVNKKFQDIMIEKYINGKDYRACVVDGKVVAVAQRIPPYIIGNGKSTIYELIKEL
                     NRDERRGDGHEKPLTKVKIDKDLKNNINKEGYTLGYILPEEYKLELRHNANLSTGGVA
                     IDCTDLICTETREVCERAAKAIGLNICGIDICCSDISKPLKENEGIMEVNAAPGIRMH
                     QYPYKGKSRNVAKAIVDMMFKEYDGNIPIISITGTNGKTTTTRLIAHILSFSGKKVGM
                     TTTGGIYINNKCINKGDTTGYYSAKTVLTNKEAEVAVLELARGGLIRDGLPYDLADVG
                     IITNVTEDHLGLGGINTLEDMAYVKALVGEAIKKDGYVVINADDEASISIINRMKSKI
                     ILFTKNKNNPIISQYLDNKNLVLYLDEDTIYLKKLNKNEEIINVNKIPITLGGKLIYN
                     VENAMAAIAALIALGIDVNTIRQGLESFSNEEQNPGRFNMYNVHGTNVILDYGHNIEG
                     YKVVLESIKKIKHKRIIGVVGVPGDRTNSSTLKVGNICGENFDYVYIKEDRDKRGRKH
                     GEIADLLKKGILETGFKNSKLNIILDEEEALKKAIEFSNPGDLVIMFFEEFEPAENIV
                     KDKIKKGKITKRETALA"
     misc_feature    148517..150685
                     /gene="cphA"
                     /locus_tag="CLC_0168"
                     /note="cyanophycin synthetase; Provisional; Region:
                     PRK14016"
                     /db_xref="CDD:237586"
     misc_feature    149147..>149449
                     /gene="cphA"
                     /locus_tag="CLC_0168"
                     /note="ATP-grasp domain; Region: ATP-grasp_4; cl17255"
                     /db_xref="CDD:247809"
     misc_feature    149993..150481
                     /gene="cphA"
                     /locus_tag="CLC_0168"
                     /note="Mur ligase middle domain; Region: Mur_ligase_M;
                     pfam08245"
                     /db_xref="CDD:219763"
     misc_feature    150665..150886
                     /gene="cphA"
                     /locus_tag="CLC_0168"
                     /note="Mur ligase family, glutamate ligase domain; Region:
                     Mur_ligase_C; pfam02875"
                     /db_xref="CDD:217262"
     gene            151231..152073
                     /gene="ipk"
                     /locus_tag="CLC_0169"
                     /db_xref="GeneID:5398884"
                     /db_xref="Pathema:CLC_0169"
     CDS             151231..152073
                     /gene="ipk"
                     /locus_tag="CLC_0169"
                     /EC_number="2.7.1.148"
                     /note="An essential enzyme in the nonmevalonate pathway of
                     isopentenyl diphosphate and dimethylallyl diphosphate
                     biosynthesis"
                     /codon_start=1
                     /transl_table=11
                     /product="4-diphosphocytidyl-2-C-methyl-D-erythritol
                     kinase"
                     /protein_id="YP_001386080.1"
                     /db_xref="GI:153936778"
                     /db_xref="GeneID:5398884"
                     /db_xref="Pathema:CLC_0169"
                     /translation="MLSKAHAKINLSLDVIGKRKDGYHLLKMLMQTIDLYDLIEIKKI
                     KKDIIIDCDREYIPKDRRNLAYKAATLFLDRYNIDSGVRINITKNIPVAAGLAGGSTD
                     AATVLKIMRDIFEPDISNEELKEIALDIGADVPFCIEGGTALCEGIGEKITPIKNFKN
                     HILVLVKPNFGLSTKDVYNNLKVEKIYIHPNTTKLIQSIEEDNLKSVARNMRNVLENV
                     TLRKYKALNSIKSNFIELGALGSMMSGSGPSVFGLFDDMLKAQICYDNMREKYKEVFI
                     TRTI"
     misc_feature    151231..152070
                     /gene="ipk"
                     /locus_tag="CLC_0169"
                     /note="4-diphosphocytidyl-2-C-methyl-D-erythritol kinase;
                     Provisional; Region: ipk; PRK00128"
                     /db_xref="CDD:234652"
     misc_feature    151477..151653
                     /gene="ipk"
                     /locus_tag="CLC_0169"
                     /note="GHMP kinases N terminal domain; Region:
                     GHMP_kinases_N; pfam00288"
                     /db_xref="CDD:215839"
     gene            152239..152436
                     /locus_tag="CLC_0170"
                     /db_xref="GeneID:5398265"
                     /db_xref="Pathema:CLC_0170"
     CDS             152239..152436
                     /locus_tag="CLC_0170"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386081.1"
                     /db_xref="GI:153935672"
                     /db_xref="GeneID:5398265"
                     /db_xref="Pathema:CLC_0170"
                     /translation="MGRIIGIFDKYFLILMLIEGGITMFMDAPSFKKSNMMKSYKQAR
                     WIGIFIITISLILYILQRILF"
     gene            152496..154016
                     /locus_tag="CLC_0171"
                     /db_xref="GeneID:5401119"
                     /db_xref="Pathema:CLC_0171"
     CDS             152496..154016
                     /locus_tag="CLC_0171"
                     /note="identified by match to protein family HMM PF03323"
                     /codon_start=1
                     /transl_table=11
                     /product="spore germination protein"
                     /protein_id="YP_001386082.1"
                     /db_xref="GI:153936618"
                     /db_xref="GeneID:5401119"
                     /db_xref="Pathema:CLC_0171"
                     /translation="MKEVVNDEISKSIDENIKYIKELLEGNSDMVFREFLIGDKKAFI
                     MYIDGMADKDLLNDYVLESLMLESEKLGNISDIKNRISNKRYESNDKCNVNDIKNKIL
                     TVTDVSEKDKLSKAIDLVLSGDTLLLIEGMDKAYVIATRLWPVRGVGEPESETTIKGS
                     RDGFTETIRFNTALVRRRIKDTRLKIKSKTLGVRSKTDMAIIYIEDIVNQDVLNNIYD
                     RLEKIDIDAILGSGYIEHLIEDGKWSLFPTTRSTERPDVVASALYEGKVAILVDNSPF
                     AIIVPTTLPSLFQSPDDYYEKWIHSSIIRIIRLFSIIISIILPSMYVAVTSYHSDIIP
                     TKLAYFIAASREGVPFPAYMEALIMEFSLAFLMESIIRLPKPIGATIGIVGGLIIGQA
                     AVSAGIVSPIMIIIVSITTITSFTAPSYDASLSFRIIRFLLIIAASFLGLYGIILGLI
                     VLLIHLVRLKSFGIPYLSPMVNPSISDFKDMYIRAPIRFFKKRPDYMKTRDKIRQR"
     misc_feature    152541..153989
                     /locus_tag="CLC_0171"
                     /note="Bacillus/Clostridium GerA spore germination
                     protein; Region: GerA; pfam03323"
                     /db_xref="CDD:190601"
     gene            154036..155133
                     /locus_tag="CLC_0172"
                     /db_xref="GeneID:5398563"
                     /db_xref="Pathema:CLC_0172"
     CDS             154036..155133
                     /locus_tag="CLC_0172"
                     /note="identified by match to protein family HMM PF03845;
                     match to protein family HMM TIGR00912"
                     /codon_start=1
                     /transl_table=11
                     /product="spore germination protein"
                     /protein_id="YP_001386083.1"
                     /db_xref="GI:153937566"
                     /db_xref="GeneID:5398563"
                     /db_xref="Pathema:CLC_0172"
                     /translation="MVRDENFVTSYSLFATIVTSVIGVSVFSYASDLANIVGNDGWIV
                     IIISALINFGLIYIMYLIIKFNNYNEFYKIVNDNFGKYLGKIIVLSFIIYNVIYISNG
                     LRVFVEEIKLYLLEKTPTEFLIIISVIVASYLIRGEVDTLVKFNEVVFWFSFIPVIFV
                     LLFAFYQGDFTNLLPVLQNKPSSYITATWATINRFKGIEIIFLLLPFMKKKNKTSKIL
                     FNSLFFIGIFYILVVILSVTMFSTEQVKLMLWPGITMIKSIDIPGTFIERWEGIIMAI
                     WTLFFFTTFTNIYYFSADILKDMLHIEDIKISSLFIMPFVYIIALYPENVVEVIDVGK
                     NLMPILFIINMVVIPIILFLISKSKLSKRKR"
     misc_feature    154057..155010
                     /locus_tag="CLC_0172"
                     /note="Spore germination protein; Region: Spore_permease;
                     cl17796"
                     /db_xref="CDD:248350"
     gene            155183..156364
                     /locus_tag="CLC_0173"
                     /db_xref="GeneID:5401231"
                     /db_xref="Pathema:CLC_0173"
     CDS             155183..156364
                     /locus_tag="CLC_0173"
                     /note="identified by match to protein family HMM PF05504;
                     match to protein family HMM TIGR02887"
                     /codon_start=1
                     /transl_table=11
                     /product="Ger(x)C family germination protein"
                     /protein_id="YP_001386084.1"
                     /db_xref="GI:153934816"
                     /db_xref="GeneID:5401231"
                     /db_xref="Pathema:CLC_0173"
                     /translation="MKSKKCLAIILILSTICMTGCWDKIEINERAFASVLGVDAGKDI
                     GKEKQLKEISESASFTGSKFDKIKVTYAFPDISKLGPEKGGTAVDNTMSVDAYSMQNS
                     INEVINKSSRTLSFGHLKLIVLNTSILDYSNTFKEVIDYLQRQPAINRTIYIVFSEDK
                     SEEILKFKPNMEKSIENYIIGILENNKKSNTSFPLTLNEFLEKTGQNNITLMPVINID
                     KENKDLKISKVAVIKNDKIKGYISTEQANSIQLINKRFKGGTRTIIRDGSPLDYSIEN
                     NERKINIKDKKKLSVDIKLNLEGQIKGYNIDKQISSNEENIKKIESNLDKAITQDIKE
                     VIRISQTEYNTDILDLGEFIHKYHPKLWKEIKGDWNQLYKTVDINVSVDTKVRRIGGI
                     K"
     misc_feature    155192..156361
                     /locus_tag="CLC_0173"
                     /note="germination protein, Ger(x)C family; Region:
                     spore_ger_x_C; TIGR02887"
                     /db_xref="CDD:234048"
     misc_feature    155858..156361
                     /locus_tag="CLC_0173"
                     /note="Spore germination B3/ GerAC like, C-terminal;
                     Region: Spore_GerAC; pfam05504"
                     /db_xref="CDD:218615"
     gene            156437..157069
                     /locus_tag="CLC_0174"
                     /db_xref="GeneID:5399201"
                     /db_xref="Pathema:CLC_0174"
     CDS             156437..157069
                     /locus_tag="CLC_0174"
                     /note="identified by match to protein family HMM
                     TIGR02837"
                     /codon_start=1
                     /transl_table=11
                     /product="stage II sporulation protein R"
                     /protein_id="YP_001386085.1"
                     /db_xref="GI:153935571"
                     /db_xref="GeneID:5399201"
                     /db_xref="Pathema:CLC_0174"
                     /translation="MKKILVFMLSIIVVFFISFKSFNLFHKSTSVEQKDISNKIIRFH
                     VLANSDSIEDQGLKLKVKDEIIKYMMPKLDKSSSIDESRKILKENDKEIKKIAENIIN
                     KNGYKYSVNTYLGQDQFPIKTYGNITLPQGKYEAYKIVIGNGQGQNWWCVMFPPLCFV
                     DVTKGEVSTKKTEQKMKKVLKEEELKCINNSKNSYEIKFKVVEKINKLKR"
     misc_feature    156542..156937
                     /locus_tag="CLC_0174"
                     /note="Stage II sporulation protein R (spore_II_R);
                     Region: Spore_II_R; pfam09551"
                     /db_xref="CDD:150280"
     gene            complement(157106..158347)
                     /locus_tag="CLC_0175"
                     /db_xref="GeneID:5400851"
                     /db_xref="Pathema:CLC_0175"
     CDS             complement(157106..158347)
                     /locus_tag="CLC_0175"
                     /note="identified by match to protein family HMM PF04101;
                     match to protein family HMM PF06925"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386086.1"
                     /db_xref="GI:153936337"
                     /db_xref="GeneID:5400851"
                     /db_xref="Pathema:CLC_0175"
                     /translation="MKILILSVSAGGGHIHAAEALKSYIKLNNNKAEITVIDTLKYIN
                     PLIDKVIIGSYLKTLKVTPSLFGKLYDHSEDDEGLATVISSNLSKIMTYKLSHLVNEL
                     NPDIIICTHPFPAEMISIMKDKGKLNIPSLTILTDYAPHSFWIQEHTDAYVVSNSDMI
                     DEMVARNVPKNKIFDFGIPVNPSFLKKYDKEKTLKELDLNINIPTFLIMGGSLGIGKI
                     SDLYSELIKIDQNMQIIIITGNNKKLYSELNKLKENSNKETRIIGFTDKVNKYMQCCD
                     LLLTKPGGLTITEALVSNIPMAVFSPIPGQEEKNAKFLLRHNLAISIDSIEDTKDIIS
                     DLLKSESSLKTMSLNCNKFAKPNCGNDIYNLLEFLISIKKNDSSKNKMYVSNPVISHK
                     SKNLFKSIEKYFIKTAEKFLL"
     misc_feature    complement(157241..158344)
                     /locus_tag="CLC_0175"
                     /note="UDP-N-acetylglucosamine:LPS N-acetylglucosamine
                     transferase [Cell envelope biogenesis, outer membrane];
                     Region: MurG; COG0707"
                     /db_xref="CDD:223779"
     misc_feature    complement(157808..158308)
                     /locus_tag="CLC_0175"
                     /note="Monogalactosyldiacylglycerol (MGDG) synthase;
                     Region: MGDG_synth; pfam06925"
                     /db_xref="CDD:219230"
     misc_feature    complement(157253..>157858)
                     /locus_tag="CLC_0175"
                     /note="Glycosyltransferases catalyze the transfer of sugar
                     moieties from activated donor molecules to specific
                     acceptor molecules, forming glycosidic bonds. The acceptor
                     molecule can be a lipid, a protein, a heterocyclic
                     compound, or another carbohydrate...; Region:
                     Glycosyltransferase_GTB_type; cl10013"
                     /db_xref="CDD:245227"
     gene            158720..160090
                     /gene="ypeB"
                     /locus_tag="CLC_0176"
                     /db_xref="GeneID:5399681"
                     /db_xref="Pathema:CLC_0176"
     CDS             158720..160090
                     /gene="ypeB"
                     /locus_tag="CLC_0176"
                     /note="identified by match to protein family HMM PF03413;
                     match to protein family HMM TIGR02889"
                     /codon_start=1
                     /transl_table=11
                     /product="germination protein YpeB"
                     /protein_id="YP_001386087.1"
                     /db_xref="GI:153936395"
                     /db_xref="GeneID:5399681"
                     /db_xref="Pathema:CLC_0176"
                     /translation="MKKSTRRIVYTLIVTLIVVFSSTFAILMTLERNDYRNYLQGEYS
                     KSLHELITSVQNIRVNLSKASIIGSRDQEIVTFEEIFKYSSMANDKLHSLPIDQNTIA
                     NTSKFLSQVGDFSNSLGKSIVKNNNLSKKDYENIERLKKESLQLENQLNNVVTDINEG
                     RVKWGDIRKKVGGVLAKENPNSVKGQFNNMQKQVMQYPALIYDGPFSDNTLKITPKVN
                     SEKNISESQAQKIAENIIGKDKIKAIKLDTNEGKTNIGTYRFIADIKGRDNKNGNVTC
                     EISKHGGKLVYLIDSRSIGQPKIDSKKAKSIGNNYLKKLKISNMVPTYTLNYENVAVI
                     NYVYKQDDVIVYPDQIKLKIALDTGEIIGVDSQKYLIAHHDRDINKNIKVSQKEAQKK
                     VGKNLNITNIRLSIIPTEANTEVLCYEFSGTYKNDKFKMFINANTGYEERILQILDTP
                     NGELTI"
     misc_feature    158777..160057
                     /gene="ypeB"
                     /locus_tag="CLC_0176"
                     /note="germination protein YpeB; Region: spore_YpeB;
                     TIGR02889"
                     /db_xref="CDD:131935"
     gene            160193..161173
                     /locus_tag="CLC_0177"
                     /db_xref="GeneID:5401399"
                     /db_xref="Pathema:CLC_0177"
     CDS             160193..161173
                     /locus_tag="CLC_0177"
                     /note="identified by match to protein family HMM PF02568"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386088.1"
                     /db_xref="GI:153937112"
                     /db_xref="GeneID:5401399"
                     /db_xref="Pathema:CLC_0177"
                     /translation="MTRALAMISGGLDSTLAAKLIKDQGIEVIGICFRSYFFNEKNAE
                     RMTKQIDIPLEVVDFSKEHLDMVKNPKHGYGKNMNPCIDCHAMMMKYSGELLKKFNAD
                     FIITGEVLNQRPMSQNKAALNVVKKESGYEEKILRPLCAKILPPTEMELQNLVDREKL
                     LNISGRSRKVQMELAEKWGIKEYPSPAGGCKLTEPNYAKRLKDLLKHKETPEVRELEL
                     LKYGRHFRISENCKIISTRTKEEGDIIKNYLDSKDYMLLACDYNGSTVIIIGEPNKDD
                     IKLAAEITGRYSKGKDEDEIKVKYGKVNTDLNNIIKVKPASDDYLKKFII"
     misc_feature    160193..160966
                     /locus_tag="CLC_0177"
                     /note="Predicted tRNA(5-methylaminomethyl-2-thiouridylate)
                     methyltransferase, contains the PP-loop ATPase domain
                     [Translation, ribosomal structure and biogenesis]; Region:
                     TrmU; COG0482"
                     /db_xref="CDD:223558"
     misc_feature    160199..160750
                     /locus_tag="CLC_0177"
                     /note="ThiI is required for thiazole synthesis in the
                     thiamine biosynthesis pathway. It belongs to the Adenosine
                     Nucleotide Hydrolysis suoerfamily and predicted to bind to
                     Adenosine nucleotide; Region: ThiI; cd01712"
                     /db_xref="CDD:238845"
     misc_feature    order(160211..160219,160223..160234,160289..160291,
                     160295..160297)
                     /locus_tag="CLC_0177"
                     /note="Ligand Binding Site [chemical binding]; other site"
                     /db_xref="CDD:238845"
     misc_feature    160865..>161059
                     /locus_tag="CLC_0177"
                     /note="Domain of unknown function (DUF814); Region:
                     DUF814; pfam05670"
                     /db_xref="CDD:218683"
     gene            161198..161626
                     /locus_tag="CLC_0178"
                     /db_xref="GeneID:5398698"
                     /db_xref="Pathema:CLC_0178"
     CDS             161198..161626
                     /locus_tag="CLC_0178"
                     /note="identified by match to protein family HMM PF09148"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386089.1"
                     /db_xref="GI:153936129"
                     /db_xref="GeneID:5398698"
                     /db_xref="Pathema:CLC_0178"
                     /translation="MKKKALIHVLSSIPDVKEKDDSIEVVTPGNFYKKDKNYYAVYEE
                     TAISGMEGTTTTLKIGEKNFSLIRMGNTSTKMDFTLNKKSMSMYSTPYGTLEININTK
                     KLDINIDDNGGSIYIDYILGVEGQKPQNTILSINISPEKK"
     misc_feature    161216..161602
                     /locus_tag="CLC_0178"
                     /note="Domain of unknown function (DUF1934); Region:
                     DUF1934; pfam09148"
                     /db_xref="CDD:220126"
     gene            161758..162057
                     /locus_tag="CLC_0179"
                     /db_xref="GeneID:5400110"
                     /db_xref="Pathema:CLC_0179"
     CDS             161758..162057
                     /locus_tag="CLC_0179"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386090.1"
                     /db_xref="GI:153936916"
                     /db_xref="GeneID:5400110"
                     /db_xref="Pathema:CLC_0179"
                     /translation="MNYFTNSKYENIIKLLCKYKGLSEYEIIKIMGDNECRYLLFLLL
                     RKYNCIEIENLKKDFNINDYEGICNNIEEAEKKLLLNKKIRDMFFEAGEILDNIK"
     gene            162291..163892
                     /gene="pyrG"
                     /locus_tag="CLC_0180"
                     /db_xref="GeneID:5398352"
                     /db_xref="Pathema:CLC_0180"
     CDS             162291..163892
                     /gene="pyrG"
                     /locus_tag="CLC_0180"
                     /EC_number="6.3.4.2"
                     /note="CTP synthase; cytidine triphosphate synthetase;
                     catalyzes the ATP-dependent amination of UTP to CTP with
                     either L-glutamine or ammonia as the source of nitrogen;
                     in Escherichia coli this enzyme forms a homotetramer"
                     /codon_start=1
                     /transl_table=11
                     /product="CTP synthetase"
                     /protein_id="YP_001386091.1"
                     /db_xref="GI:153937013"
                     /db_xref="GeneID:5398352"
                     /db_xref="Pathema:CLC_0180"
                     /translation="MSTKYIFVTGGVVSSLGKGITAASLGRLLKNRGLKVSIQKFDPY
                     INIDPGTMSPYQHGEVFVTEDGAETDLDLGHYERFIDENLSQNNNVTTGKIYWSVISK
                     ERKGDYLGATVQVIPHITTEIKSRVYRVAKEKEVDVVITEIGGTIGDIESLPFLESIR
                     QIKYEVGRENVCFIHVTLLPFLGKAGELKTKPTQHSVKELRGIGIQPDIIVCRSEKQI
                     PEELKGKIGLFCNVDKEDVIQNLDAENLYEVPLMLHKENLDTLVCKKLGLNYSKIDNT
                     EWISMVNNAKNLSKNTTIALVGKYVELHDAYISIVEALNHGGYANDTKVNIKWINSEE
                     VNENNFEQYLKDVDGILVPGGFGDRGIEGKIWAAKWARENKIPFLGICLGMQCAVIEF
                     ARNVLNYKGAHSAEIDPNTKYPVIDLMPEQKDIDNMGGTMRLGAYPCKLLKGTNSEKA
                     YGQEIVYERHRHRYEFNNEYRSKLTEAGLILSGTSPDDRLVEIVEINNHPWYVAVQFH
                     PELKSRPNKPHPLFKDFVKATLDKK"
     misc_feature    162297..163889
                     /gene="pyrG"
                     /locus_tag="CLC_0180"
                     /note="CTP synthetase; Validated; Region: pyrG; PRK05380"
                     /db_xref="CDD:235437"
     misc_feature    162300..163064
                     /gene="pyrG"
                     /locus_tag="CLC_0180"
                     /note="CTP synthetase (CTPs) is a two-domain protein,
                     which consists of an N-terminal synthetase domain and
                     C-terminal glutaminase domain. The enzymes hydrolyze the
                     amide bond of glutamine to ammonia and glutamate at the
                     glutaminase domains and transfer nascent...; Region: CTGs;
                     cd03113"
                     /db_xref="CDD:239387"
     misc_feature    order(162330..162332,162339..162350,162408..162410,
                     162414..162422,162498..162500,162504..162506,
                     162513..162518,162714..162716,162720..162722)
                     /gene="pyrG"
                     /locus_tag="CLC_0180"
                     /note="Catalytic site [active]"
                     /db_xref="CDD:239387"
     misc_feature    order(162333..162347,162408..162410,162723..162725,
                     162855..162863,162963..162965)
                     /gene="pyrG"
                     /locus_tag="CLC_0180"
                     /note="active site"
                     /db_xref="CDD:239387"
     misc_feature    order(162408..162422,162720..162725,162741..162743,
                     162855..162863,162963..162965)
                     /gene="pyrG"
                     /locus_tag="CLC_0180"
                     /note="UTP binding site [chemical binding]; other site"
                     /db_xref="CDD:239387"
     misc_feature    163167..163868
                     /gene="pyrG"
                     /locus_tag="CLC_0180"
                     /note="Type 1 glutamine amidotransferase (GATase1) domain
                     found in Cytidine Triphosphate Synthetase; Region:
                     GATase1_CTP_Synthase; cd01746"
                     /db_xref="CDD:153217"
     misc_feature    order(163347..163361,163434..163439,163446..163448,
                     163506..163508,163671..163682,163812..163814,
                     163818..163820)
                     /gene="pyrG"
                     /locus_tag="CLC_0180"
                     /note="active site"
                     /db_xref="CDD:153217"
     misc_feature    order(163353..163355,163437..163439)
                     /gene="pyrG"
                     /locus_tag="CLC_0180"
                     /note="putative oxyanion hole; other site"
                     /db_xref="CDD:153217"
     misc_feature    order(163434..163436,163812..163814,163818..163820)
                     /gene="pyrG"
                     /locus_tag="CLC_0180"
                     /note="catalytic triad [active]"
                     /db_xref="CDD:153217"
     gene            164340..164684
                     /locus_tag="CLC_0181"
                     /db_xref="GeneID:5398424"
                     /db_xref="Pathema:CLC_0181"
     CDS             164340..164684
                     /locus_tag="CLC_0181"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386092.1"
                     /db_xref="GI:153934496"
                     /db_xref="GeneID:5398424"
                     /db_xref="Pathema:CLC_0181"
                     /translation="MIIQTELGIAIKNTFGKYELIDFSLFNTSKINEYELGLTINKSN
                     KGSITITAKCHICNNIHKYNYNIDEFLKREIIVGGCEILGIPLFYIGNKSTIEERVYK
                     QNQIFDKIYMMV"
     gene            164856..166301
                     /gene="rho"
                     /locus_tag="CLC_0182"
                     /db_xref="GeneID:5400490"
                     /db_xref="Pathema:CLC_0182"
     CDS             164856..166301
                     /gene="rho"
                     /locus_tag="CLC_0182"
                     /note="An RNA-DNA helicase that actively releases nascent
                     mRNAs from paused transcription complexes"
                     /codon_start=1
                     /transl_table=11
                     /product="transcription termination factor Rho"
                     /protein_id="YP_001386093.1"
                     /db_xref="GI:153934510"
                     /db_xref="GeneID:5400490"
                     /db_xref="Pathema:CLC_0182"
                     /translation="MINKDYESMTVKELREIAKKLDIKNISKFKKNELIEEIKTSKST
                     AIEKDGKILVEKISPKIIKSENNIHSKITKENGINEEKTSSLMKNNEENKAERLKEMI
                     NESQRAKGVLEIIENNNYGFLRGQNYLSGPEDIYIYPSQIRRFNLRTGDEVEGKVRIP
                     KDGEKFKALIYVERVNGENPEKAVGRKPFESLVPIYPNERIKLETNSQDLSTRLMDII
                     SPIGKGQRGMIVAPPKAGKTTLLKKIAQSISRNNPLCKLIVLLIDERPEEVTDMQRSI
                     KGEVIYSTFDEEPEHHTKVTYMVLERAKRMVEQGQDVVILLDSITRLSRAYNLTITPT
                     GRTLSGGLDPGALVMPKKFFGAARNIENGGSLTILATALTETGSRMDDMIFEEFKGTG
                     NMEVHLNRKLQERRIFPALDIYKSGTRRDDLLFTDSLEKETAFNIRKLLYEENNVENV
                     TEQVLSILSKTKTNEEFVNIISKMDMNKNNR"
     misc_feature    164865..166274
                     /gene="rho"
                     /locus_tag="CLC_0182"
                     /note="transcription termination factor Rho; Provisional;
                     Region: rho; PRK09376"
                     /db_xref="CDD:236490"
     misc_feature    164868..164984
                     /gene="rho"
                     /locus_tag="CLC_0182"
                     /note="Rho termination factor, N-terminal domain; Region:
                     Rho_N; smart00959"
                     /db_xref="CDD:198027"
     misc_feature    165177..165374
                     /gene="rho"
                     /locus_tag="CLC_0182"
                     /note="Rho_CSD: Rho protein cold-shock domain (CSD). Rho
                     protein is a transcription termination factor in most
                     bacteria. In bacteria, there are two distinct mechanisms
                     for mRNA transcription termination. In intrinsic
                     termination, RNA polymerase and nascent mRNA...; Region:
                     Rho_CSD; cd04459"
                     /db_xref="CDD:239906"
     misc_feature    order(165192..165194,165198..165200,165213..165215,
                     165219..165221,165225..165227,165255..165257,
                     165261..165263,165336..165338,165345..165353)
                     /gene="rho"
                     /locus_tag="CLC_0182"
                     /note="RNA binding site [nucleotide binding]; other site"
                     /db_xref="CDD:239906"
     misc_feature    165480..166181
                     /gene="rho"
                     /locus_tag="CLC_0182"
                     /note="RecA-like NTPases. This family includes the NTP
                     binding domain of F1 and V1 H+ATPases, DnaB and related
                     helicases as well as bacterial RecA and related eukaryotic
                     and archaeal recombinases. This group also includes
                     bacterial conjugation proteins and...; Region:
                     RecA-like_NTPases; cl17233"
                     /db_xref="CDD:247787"
     misc_feature    order(165546..165551,165561..165569)
                     /gene="rho"
                     /locus_tag="CLC_0182"
                     /note="Walker A motif; other site"
                     /db_xref="CDD:238540"
     misc_feature    order(165549..165551,165561..165569,165630..165632,
                     165636..165641,165807..165812)
                     /gene="rho"
                     /locus_tag="CLC_0182"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:238540"
     misc_feature    165795..165809
                     /gene="rho"
                     /locus_tag="CLC_0182"
                     /note="Walker B motif; other site"
                     /db_xref="CDD:238540"
     gene            complement(166341..166559)
                     /gene="rpmE"
                     /locus_tag="CLC_0183"
                     /db_xref="GeneID:5399154"
                     /db_xref="Pathema:CLC_0183"
     CDS             complement(166341..166559)
                     /gene="rpmE"
                     /locus_tag="CLC_0183"
                     /note="identified by match to protein family HMM PF01197;
                     match to protein family HMM TIGR00105"
                     /codon_start=1
                     /transl_table=11
                     /product="50S ribosomal protein L31"
                     /protein_id="YP_001386094.1"
                     /db_xref="GI:153935369"
                     /db_xref="GeneID:5399154"
                     /db_xref="Pathema:CLC_0183"
                     /translation="MREGIHPEYNHDVVVKCACGNTFTTGSTNKELKVEICSKCHPFF
                     TGKQKIVDAGGRVDKFMKKFNLSNEDVK"
     misc_feature    complement(166359..166559)
                     /gene="rpmE"
                     /locus_tag="CLC_0183"
                     /note="50S ribosomal protein L31; Reviewed; Region: rpmE;
                     PRK00019"
                     /db_xref="CDD:234576"
     gene            166786..167361
                     /gene="tdk"
                     /locus_tag="CLC_0184"
                     /db_xref="GeneID:5399142"
                     /db_xref="Pathema:CLC_0184"
     CDS             166786..167361
                     /gene="tdk"
                     /locus_tag="CLC_0184"
                     /EC_number="2.7.1.21"
                     /note="catalyzes the formation of thymidine 5'-phosphate
                     from thymidine"
                     /codon_start=1
                     /transl_table=11
                     /product="thymidine kinase"
                     /protein_id="YP_001386095.1"
                     /db_xref="GI:153936545"
                     /db_xref="GeneID:5399142"
                     /db_xref="Pathema:CLC_0184"
                     /translation="MYGPKDHGWIEVVAGPMYSGKTEELIRRIRRAEIAKQKVQVFKP
                     EIDNRYSKQDVVSHAGDKIQSVPVKSSKEILEKLLDDTDVIGIDEAQFFDDFLVEIVS
                     KIANNNRRVICAGLDMDFKGEPFGPMPKLMAIAEFVDKIQAVCMVCNNPATRTQRLIN
                     GKPAKKSDPVVLIGAQESYEARCRKCHRVPR"
     misc_feature    166804..167358
                     /gene="tdk"
                     /locus_tag="CLC_0184"
                     /note="thymidine kinase; Provisional; Region: PRK04296"
                     /db_xref="CDD:235272"
     gene            167378..168295
                     /locus_tag="CLC_0185"
                     /db_xref="GeneID:5398791"
                     /db_xref="Pathema:CLC_0185"
     CDS             167378..168295
                     /locus_tag="CLC_0185"
                     /note="identified by match to protein family HMM PF07136"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386096.1"
                     /db_xref="GI:153937305"
                     /db_xref="GeneID:5398791"
                     /db_xref="Pathema:CLC_0185"
                     /translation="MGKSTNVGGQAVLEGVMMRGKNGIATAVRKTNGEVIVNKESYTP
                     YTKKSFFFSLPIIRGFVSLIESLVIGIQTLNYSASFFEEQVEESKFDKWFNRTFKDKA
                     DNILIGITLLISFIISAVVFFIFPTFIANFFKKIYIQNTLLLNIIEGIIRIAIFLLYI
                     LLISNMEDIKRVFQYHGAEHKTIFCYENHMDLIPENAIKFTRFHPRCGTNFLFLVMIV
                     SILLFSLTGWNNIWQRILYRIILLPVVSGVTYEIIKWLGKSNSNFAKIIAYPGLMLQK
                     LTTKEPDLRQLEVAIMALKAAEGIESSME"
     misc_feature    167537..168280
                     /locus_tag="CLC_0185"
                     /note="Protein of unknown function (DUF1385); Region:
                     DUF1385; pfam07136"
                     /db_xref="CDD:148632"
     gene            168303..169154
                     /gene="hemK"
                     /locus_tag="CLC_0186"
                     /db_xref="GeneID:5400710"
                     /db_xref="Pathema:CLC_0186"
     CDS             168303..169154
                     /gene="hemK"
                     /locus_tag="CLC_0186"
                     /EC_number="2.1.1.-"
                     /note="identified by match to protein family HMM PF05175;
                     match to protein family HMM TIGR00536; match to protein
                     family HMM TIGR03387"
                     /codon_start=1
                     /transl_table=11
                     /product="protein-(glutamine-N5) methyltransferase"
                     /protein_id="YP_001386097.1"
                     /db_xref="GI:153935975"
                     /db_xref="GeneID:5400710"
                     /db_xref="Pathema:CLC_0186"
                     /translation="MILKDLLIEGYGVLKKASIGSYQIDAQLLLGKVLKKDRLFILTN
                     PDYHIKEEEKEKYFQLIDLRKNKMPIKYILGTTEFMGLNFNIKKGVLIPRPDTEILVE
                     TVLEEIKNKNYKQICDVCCGSGIIGITIGYTLNNTEIICYDIEDIPYNTTKENILKHN
                     LQDRVKALKSDLLTEAIKEKRRFDLIVSNPPYIREDVIETLMDDVKKYEPFEALCGGK
                     DGLFFYEGIIKQSLEVLNDGGTIAFEIGYDQKIQVSHILNEYGFKDVLCIKDLAGKDR
                     VIKARKY"
     misc_feature    168375..169136
                     /gene="hemK"
                     /locus_tag="CLC_0186"
                     /note="protein-(glutamine-N5) methyltransferase, release
                     factor-specific; Region: RF_mod_PrmC; TIGR03534"
                     /db_xref="CDD:234248"
     misc_feature    <168714..169037
                     /gene="hemK"
                     /locus_tag="CLC_0186"
                     /note="S-adenosylmethionine-dependent methyltransferases
                     (SAM or AdoMet-MTase), class I;  AdoMet-MTases are enzymes
                     that use S-adenosyl-L-methionine (SAM or AdoMet) as a
                     substrate for methyltransfer, creating the product
                     S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases;
                     cd02440"
                     /db_xref="CDD:100107"
     gene            169236..170312
                     /gene="prfA"
                     /locus_tag="CLC_0187"
                     /db_xref="GeneID:5401331"
                     /db_xref="Pathema:CLC_0187"
     CDS             169236..170312
                     /gene="prfA"
                     /locus_tag="CLC_0187"
                     /note="recognizes the termination signals UAG and UAA
                     during protein translation a specificity which is
                     dependent on amino acid residues residing in loops of the
                     L-shaped tRNA-like molecule of RF1; this protein is
                     similar to release factor 2"
                     /codon_start=1
                     /transl_table=11
                     /product="peptide chain release factor 1"
                     /protein_id="YP_001386098.1"
                     /db_xref="GI:153936703"
                     /db_xref="GeneID:5401331"
                     /db_xref="Pathema:CLC_0187"
                     /translation="MLERLNFIENKYEELSNKISDPSVMANQKEWQKLCKEHADLEII
                     VNTYREYKKAQEDLESDKEMLKEESDKELREMAQEEIKELTLKLEDLERELTILLLPK
                     DPNDDKDVFIEIRAGAGGEEAALFASNLLRMYTRYAERKNWKVETISLNATDIGGFKE
                     VTVAVKGKGAYSRLKYESGVHRVQRVPDTESSGRIHTSTATVAVLPEVDDVDININAN
                     DLRIDVYRASGHGGQCVNTTDSAVRITHLPTGLVVTCQDEKSQLKNKEKAMKVLKARL
                     FEAAEAERAASIAEDRKSQVGTGDRSERIRTYNYPQGRITDHRIGLTLYKLETFLDGD
                     IDEAIEALVTEDQAEKMKDLGRVN"
     misc_feature    169236..170300
                     /gene="prfA"
                     /locus_tag="CLC_0187"
                     /note="peptide chain release factor 1; Validated; Region:
                     prfA; PRK00591"
                     /db_xref="CDD:234801"
     misc_feature    169422..169766
                     /gene="prfA"
                     /locus_tag="CLC_0187"
                     /note="This domain is found in peptide chain release
                     factors; Region: PCRF; smart00937"
                     /db_xref="CDD:214923"
     misc_feature    169893..170192
                     /gene="prfA"
                     /locus_tag="CLC_0187"
                     /note="RF-1 domain; Region: RF-1; pfam00472"
                     /db_xref="CDD:201249"
     gene            170340..170948
                     /locus_tag="CLC_0188"
                     /db_xref="GeneID:5401505"
                     /db_xref="Pathema:CLC_0188"
     CDS             170340..170948
                     /locus_tag="CLC_0188"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386099.1"
                     /db_xref="GI:153934667"
                     /db_xref="GeneID:5401505"
                     /db_xref="Pathema:CLC_0188"
                     /translation="MDLNKGRRNQKRSYERFVVIMSFIFILLPLFLYLYNKIYDIFYV
                     SYLIIIEILIVMAIIIRTDKEKLKFQYSNNRLKIVLGIMNRKLNIVCDKVVLVHIEQY
                     NNIYDVEDFRIILLTTSKFRNNKIIKVNEKFLKLHDYAANFYYKLKKIDPEKDFYYTI
                     IKRGGLKKYYLLDTLYRTCVYAHFTEECIEKIKELRKEMEID"
     gene            171008..171727
                     /locus_tag="CLC_0189"
                     /db_xref="GeneID:5399111"
                     /db_xref="Pathema:CLC_0189"
     CDS             171008..171727
                     /locus_tag="CLC_0189"
                     /note="identified by match to protein family HMM PF02535"
                     /codon_start=1
                     /transl_table=11
                     /product="ZIP transporter family protein"
                     /protein_id="YP_001386100.1"
                     /db_xref="GI:153935179"
                     /db_xref="GeneID:5399111"
                     /db_xref="Pathema:CLC_0189"
                     /translation="MSKLLFIIVMGTIISLSGTMIGAIIGISLKDPSEKLLCKFMGFS
                     AGLMLSIVVFDLIPEALNSWDFYGVLIFLILGMLIVYFIDKNTNSIDINMHKKVAFMT
                     ALGLILHNFPEGILMGVGFQAGNRLGLKMAIIISIHDIPEGIAVATPLIASNEKKSKT
                     LFYVFLTAIPTLFGVFLGSYVATISKNFLSILLALASGIMLYVVCAEMIPESRNLGDK
                     LTSYFYMIVGIIAGLVIIKLL"
     misc_feature    171008..171724
                     /locus_tag="CLC_0189"
                     /note="Predicted divalent heavy-metal cations transporter
                     [Inorganic ion transport and metabolism]; Region: COG0428"
                     /db_xref="CDD:223505"
     gene            171748..172803
                     /locus_tag="CLC_0190"
                     /db_xref="GeneID:5398770"
                     /db_xref="Pathema:CLC_0190"
     CDS             171748..172803
                     /locus_tag="CLC_0190"
                     /note="identified by match to protein family HMM PF01300;
                     match to protein family HMM PF03481; match to protein
                     family HMM TIGR00057"
                     /codon_start=1
                     /transl_table=11
                     /product="Sua5/YciO/YrdC/YwlC family protein"
                     /protein_id="YP_001386101.1"
                     /db_xref="GI:153936453"
                     /db_xref="GeneID:5398770"
                     /db_xref="Pathema:CLC_0190"
                     /translation="MKTKVMRLDENNIDEHVISEAGDILRQGGLVVFPTETVYGLGAN
                     ALDKNAVKGIFQAKGRPQDNPLIVHISKMKDIEKLVQKIPSVAEKLMDKFWPGPMTII
                     LKKKDIIPNETSAGLDSIGIRMPSNKIAMKLISMAGVPIAAPSANLSGKPSPTDVETC
                     IEDLDGKVNIILGGDNSEVGVESTVIDCTINPPCILRPGGITLEMVKEVDSNIYIDPA
                     IMKKPDKDLKPKAPGMKYRHYAPKAPLKIIKGDLNKTIEKINEMVQNYIDAEKKVGII
                     ATDETIDNYRKGDVVSIGSRKDLNTIAHNLFYVLRSFDEKNVDLILSEAFEEKDMGVA
                     IMNRLKKSAGYDIINLD"
     misc_feature    171754..172374
                     /locus_tag="CLC_0190"
                     /note="Putative translation factor (SUA5) [Translation,
                     ribosomal structure and biogenesis]; Region: SUA5;
                     COG0009"
                     /db_xref="CDD:223088"
     misc_feature    172348..172779
                     /locus_tag="CLC_0190"
                     /note="Putative GTP-binding controlling metal-binding;
                     Region: SUA5; pfam03481"
                     /db_xref="CDD:217588"
     gene            172812..173264
                     /locus_tag="CLC_0191"
                     /db_xref="GeneID:5399542"
                     /db_xref="Pathema:CLC_0191"
     CDS             172812..173264
                     /locus_tag="CLC_0191"
                     /EC_number="3.1.3.48"
                     /note="identified by match to protein family HMM PF01451"
                     /codon_start=1
                     /transl_table=11
                     /product="low molecular weight protein tyrosine
                     phosphatase"
                     /protein_id="YP_001386102.1"
                     /db_xref="GI:153935491"
                     /db_xref="GeneID:5399542"
                     /db_xref="Pathema:CLC_0191"
                     /translation="MNILFVCTGNTCRSFMAEAIFNSLNNMEELTAKSAGIAVVPGSV
                     SSSNACKIINEDINVDLSNREAIQLDEEILDQSDLILTMTYSAKDLLSNLSLEDSDRI
                     FCITEYVGQKGEILDPFGGDIEVYKNTYEQLKNIILLLLKKLKEDRQN"
     misc_feature    172812..173207
                     /locus_tag="CLC_0191"
                     /note="Low molecular weight phosphatase family; Region:
                     LMWPc; cd00115"
                     /db_xref="CDD:238063"
     misc_feature    172818..173207
                     /locus_tag="CLC_0191"
                     /note="Low molecular weight phosphotyrosine protein
                     phosphatase; Region: LMWPc; pfam01451"
                     /db_xref="CDD:201802"
     misc_feature    order(172830..172832,172836..172841,172845..172853)
                     /locus_tag="CLC_0191"
                     /note="active site"
                     /db_xref="CDD:238063"
     gene            173324..173761
                     /gene="rpiB"
                     /locus_tag="CLC_0192"
                     /db_xref="GeneID:5399061"
                     /db_xref="Pathema:CLC_0192"
     CDS             173324..173761
                     /gene="rpiB"
                     /locus_tag="CLC_0192"
                     /EC_number="5.3.1.6"
                     /note="catalyzes the interconversion of ribose 5-phosphate
                     to ribulose 5-phosphate; enzyme from E. coli shows allose
                     6-phosphate isomerase activity"
                     /codon_start=1
                     /transl_table=11
                     /product="ribose-5-phosphate isomerase B"
                     /protein_id="YP_001386103.1"
                     /db_xref="GI:153935683"
                     /db_xref="GeneID:5399061"
                     /db_xref="Pathema:CLC_0192"
                     /translation="MKIALGSDHAGLPLKNEIIKHLEGKGIEIKDFGTYTEESCDYPD
                     YAQKVAEKVVAKEFDFGILVCGTGIGISIAANKVKGVRAALCSDTFSAHACREHNNAN
                     ILALGQRVVGVGLALDIVDNFLNAEFQGGRHENRINKMMRIEK"
     misc_feature    173324..173758
                     /gene="rpiB"
                     /locus_tag="CLC_0192"
                     /note="ribose-5-phosphate isomerase B; Provisional;
                     Region: PRK05571"
                     /db_xref="CDD:235509"
     gene            173791..174420
                     /gene="upp"
                     /locus_tag="CLC_0193"
                     /db_xref="GeneID:5398716"
                     /db_xref="Pathema:CLC_0193"
     CDS             173791..174420
                     /gene="upp"
                     /locus_tag="CLC_0193"
                     /EC_number="2.4.2.9"
                     /note="Catalyzes the formation of uracil and
                     5-phospho-alpha-D-ribosy 1-diphosphate from UMP and
                     diphosphate"
                     /codon_start=1
                     /transl_table=11
                     /product="uracil phosphoribosyltransferase"
                     /protein_id="YP_001386104.1"
                     /db_xref="GI:153934722"
                     /db_xref="GeneID:5398716"
                     /db_xref="Pathema:CLC_0193"
                     /translation="MSKVTQIAHPLILHKLALIRDKNTGSKDFRELVEEVAMLMAYEV
                     TRDLQLKEVEIETPICKTKCKMLSGKKVAIVPILRAGLGMVGGMTSLIPAAKVGHIGL
                     YRDEETLKPVEYFCKLPQDIGDRDVIVTDPMLATGGSAKDAITLLKQKGAKHIRLMCL
                     VAAPEGIKEVMDEHPDVDIYVASVDEKLNEKGYVVPGLGDAGDRLYGTK"
     misc_feature    173995..174339
                     /gene="upp"
                     /locus_tag="CLC_0193"
                     /note="Phosphoribosyl transferase (PRT)-type I domain;
                     Region: PRTases_typeI; cd06223"
                     /db_xref="CDD:206754"
     misc_feature    order(174022..174024,174028..174030,174181..174189,
                     174193..174207,174277..174279)
                     /gene="upp"
                     /locus_tag="CLC_0193"
                     /note="active site"
                     /db_xref="CDD:206754"
     gene            174927..175415
                     /locus_tag="CLC_0194"
                     /db_xref="GeneID:5400667"
                     /db_xref="Pathema:CLC_0194"
     CDS             174927..175415
                     /locus_tag="CLC_0194"
                     /note="identified by match to protein family HMM PF00383"
                     /codon_start=1
                     /transl_table=11
                     /product="cytidine/deoxycytidylate deaminase"
                     /protein_id="YP_001386105.1"
                     /db_xref="GI:153937331"
                     /db_xref="GeneID:5400667"
                     /db_xref="Pathema:CLC_0194"
                     /translation="MDRIDKNNYYLDICETVLERGTCLRRNFAAIIVKNDEIMATGYT
                     GAPRGRKNCCDLGYCKREELKVPRGTRYELCRSVHAEQNAIISARRQDMIASTMYLVG
                     KEYSTGKYVVNTAPCSLCKRFIINSGIDKVVIRDSKEKFRIIQVEEWIENDDSLNGDG
                     SY"
     misc_feature    174927..175403
                     /locus_tag="CLC_0194"
                     /note="Deoxycytidylate deaminase [Nucleotide transport and
                     metabolism]; Region: ComEB; COG2131"
                     /db_xref="CDD:225042"
     misc_feature    order(175161..175169,175272..175277,175284..175286)
                     /locus_tag="CLC_0194"
                     /note="active site"
                     /db_xref="CDD:238406"
     misc_feature    order(175161..175163,175167..175169,175275..175277,
                     175284..175286)
                     /locus_tag="CLC_0194"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:238406"
     gene            175523..176557
                     /gene="tagO"
                     /locus_tag="CLC_0195"
                     /db_xref="GeneID:5400645"
                     /db_xref="Pathema:CLC_0195"
     CDS             175523..176557
                     /gene="tagO"
                     /locus_tag="CLC_0195"
                     /note="identified by match to protein family HMM PF00953"
                     /codon_start=1
                     /transl_table=11
                     /product="UDP-GlcNAc:undecaprenyl-P GlcNAc 1-P
                     transferase"
                     /protein_id="YP_001386106.1"
                     /db_xref="GI:153936575"
                     /db_xref="GeneID:5400645"
                     /db_xref="Pathema:CLC_0195"
                     /translation="MDTKLYIIGAITAIVLSVILTPIVKKAAFILGVVDIPKDKRKIH
                     KKPIPLLGGIAIYISFVVALILKKGPLTLEEIGIILGSTVIVIGGFIDDKYDMSPIKK
                     ILFQLAAAICLIICGLKIQFITNPFDHLNLYVGLHIFAIPITIVWVIGITNALNLIDG
                     LDGLAAGVALISCITMFVIAVLNQRWEAAILTSILGGSILGFLPYNFNPASIFMGDTG
                     SQLLGFLLAAISIEGAIKSATAFAIVVPILALGLPIYDTLFAMIRRKINGKPIMQADR
                     GHLHHRLLDMGLTQRQAVIIMYLISAVLGSFAIIAMQISNQKSYFLLTAIMLALILIA
                     WKCGFFSHKE"
     misc_feature    175535..176458
                     /gene="tagO"
                     /locus_tag="CLC_0195"
                     /note="UDP-N-acetylmuramyl pentapeptide
                     phosphotransferase/UDP-N- acetylglucosamine-1-phosphate
                     transferase [Cell envelope biogenesis, outer membrane];
                     Region: Rfe; COG0472"
                     /db_xref="CDD:223548"
     misc_feature    175643..176386
                     /gene="tagO"
                     /locus_tag="CLC_0195"
                     /note="This subfamily contains Escherichia coli WecA,
                     Bacillus subtilis TagO and related proteins. WecA is an
                     UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate
                     (Und-P) GlcNAc-1-phosphate transferase that catalyzes the
                     formation of a phosphodiester bond...; Region:
                     GT_WecA_like; cd06853"
                     /db_xref="CDD:133463"
     misc_feature    175796..175801
                     /gene="tagO"
                     /locus_tag="CLC_0195"
                     /note="Mg++ binding site [ion binding]; other site"
                     /db_xref="CDD:133463"
     misc_feature    176159..176170
                     /gene="tagO"
                     /locus_tag="CLC_0195"
                     /note="putative catalytic motif [active]"
                     /db_xref="CDD:133463"
     misc_feature    order(176312..176314,176354..176365)
                     /gene="tagO"
                     /locus_tag="CLC_0195"
                     /note="substrate binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:133463"
     gene            176571..177728
                     /gene="mnaA"
                     /locus_tag="CLC_0196"
                     /db_xref="GeneID:5399124"
                     /db_xref="Pathema:CLC_0196"
     CDS             176571..177728
                     /gene="mnaA"
                     /locus_tag="CLC_0196"
                     /EC_number="5.1.3.14"
                     /note="identified by match to protein family HMM PF02350;
                     match to protein family HMM TIGR00236"
                     /codon_start=1
                     /transl_table=11
                     /product="UDP-N-acetylglucosamine 2-epimerase"
                     /protein_id="YP_001386107.1"
                     /db_xref="GI:153937423"
                     /db_xref="GeneID:5399124"
                     /db_xref="Pathema:CLC_0196"
                     /translation="MDKIKTITIFGTRPEAIKMAPLVKELEKREEIENRVCVTAQHRE
                     MLDQVLELFNIKPDFDLNIMKSKQSLTGITTRVLEGLEEIFDKEKPNLILVHGDTTTT
                     FAGALAGFYKQIKVGHVEAGLRTFDKYFPFPEEMNRKLTGSIADLNFAPTVGSKNNLL
                     REAIDEESIFVTGNTVIDAMEFTIEQDYIFENEDLNMIDYENKKVIMVTAHRRENWGE
                     GIENICNALKTIVEKYKDVEIVYLVHLNPVVRDTVYSILGDLERVHLLDPLDTKETHN
                     LMNKCYMLMTDSGGLQEEAPHLGKPVLVLRDVTERPEAVKVGTVRLVGTDKEVITKEV
                     FDLIENKQKYDIMSKAINPYGDGKASIRIVDSILYYFDKIEKRPQEFHANK"
     misc_feature    176571..177713
                     /gene="mnaA"
                     /locus_tag="CLC_0196"
                     /note="UDP-N-acetylglucosamine 2-epimerase [Cell envelope
                     biogenesis, outer membrane]; Region: WecB; COG0381"
                     /db_xref="CDD:223458"
     misc_feature    176583..177674
                     /gene="mnaA"
                     /locus_tag="CLC_0196"
                     /note="Bacterial members of the UDP-N-Acetylglucosamine
                     (GlcNAc) 2-Epimerase  family are known to catalyze the
                     reversible interconversion of UDP-GlcNAc and
                     UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to
                     produce an activated form of ManNAc residues; Region:
                     GT1_UDP-GlcNAc_2-Epimerase; cd03786"
                     /db_xref="CDD:99962"
     misc_feature    order(176607..176609,177375..177377,177381..177383,
                     177390..177392,177438..177440,177450..177452)
                     /gene="mnaA"
                     /locus_tag="CLC_0196"
                     /note="active site"
                     /db_xref="CDD:99962"
     misc_feature    order(176784..176786,176790..176795,176814..176816,
                     176898..176903,176907..176909,176913..176915,
                     176964..176966,176976..176978,177051..177053)
                     /gene="mnaA"
                     /locus_tag="CLC_0196"
                     /note="homodimer interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:99962"
     gene            178220..178588
                     /locus_tag="CLC_0197"
                     /db_xref="GeneID:5400605"
                     /db_xref="Pathema:CLC_0197"
     CDS             178220..178588
                     /locus_tag="CLC_0197"
                     /codon_start=1
                     /transl_table=11
                     /product="ATP synthase I"
                     /protein_id="YP_001386108.1"
                     /db_xref="GI:153936404"
                     /db_xref="GeneID:5400605"
                     /db_xref="Pathema:CLC_0197"
                     /translation="MIKEIKEMISRITIFNFIIGITFFIIIYLTFNISYSFCFLLGLI
                     LANINLFINAKTTNMIIIKNKNSILSILGFFVRIIIVCALGLLLSKDNTKNIIPFLLG
                     YSSNFISIIFYGTNLGKNKV"
     gene            178603..179283
                     /gene="atpB"
                     /locus_tag="CLC_0198"
                     /db_xref="GeneID:5399169"
                     /db_xref="Pathema:CLC_0198"
     CDS             178603..179283
                     /gene="atpB"
                     /locus_tag="CLC_0198"
                     /EC_number="3.6.3.14"
                     /note="Produces ATP from ADP in the presence of a proton
                     gradient across the membrane. Subunit A is part of the
                     membrane proton channel F0"
                     /codon_start=1
                     /transl_table=11
                     /product="ATP synthase F0F1 subunit A"
                     /protein_id="YP_001386109.1"
                     /db_xref="GI:153936027"
                     /db_xref="GeneID:5399169"
                     /db_xref="Pathema:CLC_0198"
                     /translation="MEKFSPLFYINLFGYKFGITSSLVIQWVIIAIVALLSIILTRNL
                     KKVPDKRQTVMEMMLDLVRNLVNENMGEEFKSFIPFIGTLMIYLLLMNLVGLLGLKPP
                     TLDYSVVLGMALISFVVIQGYAIRKTGLKSYFLGYGKPYLFLLPLNVIERVMLPVSLS
                     LRLFGNITAAVLIMDLVYSALASISWFAQLVVPIPLHIYFDLFDGTIQMVIFVMLTMI
                     NIKVIAEH"
     misc_feature    178630..179280
                     /gene="atpB"
                     /locus_tag="CLC_0198"
                     /note="F0F1 ATP synthase subunit A; Validated; Region:
                     PRK05815"
                     /db_xref="CDD:235617"
     gene            179323..179562
                     /gene="atpE"
                     /locus_tag="CLC_0199"
                     /db_xref="GeneID:5398971"
                     /db_xref="Pathema:CLC_0199"
     CDS             179323..179562
                     /gene="atpE"
                     /locus_tag="CLC_0199"
                     /EC_number="3.6.3.14"
                     /note="produces ATP from ADP in the presence of a proton
                     gradient across the membrane; subunit C is part of the
                     membrane proton channel F0"
                     /codon_start=1
                     /transl_table=11
                     /product="ATP synthase F0F1 subunit C"
                     /protein_id="YP_001386110.1"
                     /db_xref="GI:153934640"
                     /db_xref="GeneID:5398971"
                     /db_xref="Pathema:CLC_0199"
                     /translation="MDPKAFVSGMAALGAGIAALACIGAGIGTGNATGKAVEGVSRQP
                     EASGKIMSTLVIGSAFSEATAIYGLIIALFLIFKI"
     misc_feature    <179425..179559
                     /gene="atpE"
                     /locus_tag="CLC_0199"
                     /note="F0F1 ATP synthase subunit C; Provisional; Region:
                     PRK13469"
                     /db_xref="CDD:184068"
     gene            179638..180117
                     /gene="atpF"
                     /locus_tag="CLC_0200"
                     /db_xref="GeneID:5399977"
                     /db_xref="Pathema:CLC_0200"
     CDS             179638..180117
                     /gene="atpF"
                     /locus_tag="CLC_0200"
                     /EC_number="3.6.3.14"
                     /note="produces ATP from ADP in the presence of a proton
                     gradient across the membrane; subunit B is part of the
                     membrane proton channel"
                     /codon_start=1
                     /transl_table=11
                     /product="ATP synthase F0F1 subunit B"
                     /protein_id="YP_001386111.1"
                     /db_xref="GI:153934635"
                     /db_xref="GeneID:5399977"
                     /db_xref="Pathema:CLC_0200"
                     /translation="MNISIPQIIAAILNFIILLLIVKHFWFDKITAVVDSRQSEIINK
                     IEDTDKNQKLALELKEKNELELSNAKKQGKTIVEEYKSKAENVYEDIVKEAHEEADRI
                     IKKSRLEAERQKKNAEEEIRAEAVELAVLVSSKTLEKTIDDLEHRRLIKDFISKVGI"
     misc_feature    179638..180114
                     /gene="atpF"
                     /locus_tag="CLC_0200"
                     /note="F0F1 ATP synthase subunit B; Provisional; Region:
                     PRK13461"
                     /db_xref="CDD:184064"
     misc_feature    179701..180108
                     /gene="atpF"
                     /locus_tag="CLC_0200"
                     /note="F0F1 ATP synthase subunit B; Validated; Region:
                     PRK05759"
                     /db_xref="CDD:180240"
     gene            180120..180659
                     /gene="atpH"
                     /locus_tag="CLC_0201"
                     /db_xref="GeneID:5400765"
                     /db_xref="Pathema:CLC_0201"
     CDS             180120..180659
                     /gene="atpH"
                     /locus_tag="CLC_0201"
                     /EC_number="3.6.3.14"
                     /note="Produces ATP from ADP in the presence of a proton
                     gradient across the membrane; the delta subunit is part of
                     the catalytic core of the ATP synthase complex"
                     /codon_start=1
                     /transl_table=11
                     /product="ATP synthase F0F1 subunit delta"
                     /protein_id="YP_001386112.1"
                     /db_xref="GI:153937337"
                     /db_xref="GeneID:5400765"
                     /db_xref="Pathema:CLC_0201"
                     /translation="MYEYLDRRYALALYEVAEENNKVDEYLRDLKEVVNIIKNSEDIC
                     KILKHPEINTSRKKEIFTELFKDKVDDKILSFLLVLIEKDRILYLEEKLKEMEKIYLE
                     KNNMILANIKTVIPLLKEEREELIEKLGNKYNKKIILEEEIDKSIIGGVYVRVGDDVL
                     DGTLSTRLKDIKKMMLKRE"
     misc_feature    180120..180650
                     /gene="atpH"
                     /locus_tag="CLC_0201"
                     /note="F0F1 ATP synthase subunit delta; Validated; Region:
                     PRK05758"
                     /db_xref="CDD:235593"
     misc_feature    180132..180644
                     /gene="atpH"
                     /locus_tag="CLC_0201"
                     /note="ATP synthase delta (OSCP) subunit; Region: OSCP;
                     pfam00213"
                     /db_xref="CDD:215793"
     gene            180670..182184
                     /gene="atpA"
                     /locus_tag="CLC_0202"
                     /db_xref="GeneID:5399333"
                     /db_xref="Pathema:CLC_0202"
     CDS             180670..182184
                     /gene="atpA"
                     /locus_tag="CLC_0202"
                     /EC_number="3.6.3.14"
                     /note="produces ATP from ADP in the presence of a proton
                     gradient across the membrane; the alpha chain is a
                     catalytic subunit"
                     /codon_start=1
                     /transl_table=11
                     /product="ATP synthase F0F1 subunit alpha"
                     /protein_id="YP_001386113.1"
                     /db_xref="GI:153937693"
                     /db_xref="GeneID:5399333"
                     /db_xref="Pathema:CLC_0202"
                     /translation="MNIKPEEITSIIRQQIENFNTNIETIDSGTIIQIGDGIARVYGL
                     EDCMEGELIEFPNDVYGMALNLEQDNVGCVLLGSEEGIKEGNVVKRTKKVVEVPVGEA
                     LVGRVVNSLGMPIDGKGPVLTTETRDVEVPAPGVIDRQSVKEPLQTGIKAIDSMIPIG
                     KGQRELIIGDRQTGKTAIAMDTILNQKGKDVICIYVAIGQKQSTVAHIVNDLTKMGAM
                     DYTIVVSSTASDSAPLQYLAPYAGCSMGEYFMHKGKDVLIVYDDLSKHAVAYRTMSLL
                     LRRPPGREAYPGDVFYLHSRLLERSARLSEKLGGGSLTALPIVETLAGDVTAYIPTNV
                     ISITDGQIFLESELFNAGQRPAVNAGISVSRVGGNAQIKAMKQVAGTLRLELAQYREL
                     AAFSQFGSDLDKESVKRLEKGKRLVEILKQPQYSPMPVEKEIIILYAAVSNHLIDIPV
                     NKIKEFEKELFNYIDTHYRDIGKDILEHKQLTDELKSKLDKAINDFKNVFLSEI"
     misc_feature    180670..182175
                     /gene="atpA"
                     /locus_tag="CLC_0202"
                     /note="F0F1 ATP synthase subunit alpha; Validated; Region:
                     PRK09281"
                     /db_xref="CDD:236448"
     misc_feature    180751..180942
                     /gene="atpA"
                     /locus_tag="CLC_0202"
                     /note="ATP synthase alpha/beta family, beta-barrel domain;
                     Region: ATP-synt_ab_N; pfam02874"
                     /db_xref="CDD:217261"
     misc_feature    180949..181770
                     /gene="atpA"
                     /locus_tag="CLC_0202"
                     /note="F1 ATP synthase alpha, central domain. The F-ATPase
                     is found in bacterial plasma membranes, mitochondrial
                     inner membranes and in chloroplast thylakoid membranes. It
                     has also been found in the archaea Methanosarcina barkeri.
                     It uses a proton gradient to...; Region: F1_ATPase_alpha;
                     cd01132"
                     /db_xref="CDD:238552"
     misc_feature    order(181012..181017,181063..181068,181072..181077,
                     181084..181086,181090..181092,181180..181185,
                     181270..181281,181285..181290,181297..181299,
                     181480..181485,181501..181509,181513..181518,
                     181531..181533,181543..181545,181552..181554,
                     181564..181566,181675..181677,181684..181686,
                     181717..181722,181729..181731,181762..181764)
                     /gene="atpA"
                     /locus_tag="CLC_0202"
                     /note="beta subunit interaction interface [polypeptide
                     binding]; other site"
                     /db_xref="CDD:238552"
     misc_feature    181174..181197
                     /gene="atpA"
                     /locus_tag="CLC_0202"
                     /note="Walker A motif; other site"
                     /db_xref="CDD:238552"
     misc_feature    order(181180..181182,181192..181200,181252..181254,
                     181267..181269,181450..181455,181462..181464,
                     181627..181629,181675..181677,181714..181716,
                     181729..181734,181762..181764)
                     /gene="atpA"
                     /locus_tag="CLC_0202"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:238552"
     misc_feature    181438..181452
                     /gene="atpA"
                     /locus_tag="CLC_0202"
                     /note="Walker B motif; other site"
                     /db_xref="CDD:238552"
     misc_feature    181795..182067
                     /gene="atpA"
                     /locus_tag="CLC_0202"
                     /note="ATP synthase alpha/beta chain, C terminal domain;
                     Region: ATP-synt_ab_C; pfam00306"
                     /db_xref="CDD:215848"
     gene            182206..183054
                     /gene="atpG"
                     /locus_tag="CLC_0203"
                     /db_xref="GeneID:5400528"
                     /db_xref="Pathema:CLC_0203"
     CDS             182206..183054
                     /gene="atpG"
                     /locus_tag="CLC_0203"
                     /EC_number="3.6.3.14"
                     /note="Produces ATP from ADP in the presence of a proton
                     gradient across the membrane. The gamma chain is a
                     regulatory subunit"
                     /codon_start=1
                     /transl_table=11
                     /product="ATP synthase F0F1 subunit gamma"
                     /protein_id="YP_001386114.1"
                     /db_xref="GI:153935396"
                     /db_xref="GeneID:5400528"
                     /db_xref="Pathema:CLC_0203"
                     /translation="MAGAGLIGIRRRIKSVTNIRKITKAMGLVSTAKLRKARVNLEIN
                     KKYYNEYKIILKDIINFIEDSNIYIDGNGSHKKLYVIFTSDSGLCGSFNINIINNVIN
                     EIKEDKENSLVIVIGQKGRMYLKKLGINTLAEYIEIPDVPTTKEAGTIAKNIIKLYSS
                     KEVGEVFLVYSEFYSPVKQQVLINKILPFTKENKSDNKYIEFNPPVTQLMDEILENYL
                     KATILNCFSNSKASENGSRMTAMNGATDNANDLLDNLDLQFNRLRQSAITQEISEIVG
                     GAEAQR"
     misc_feature    182215..183039
                     /gene="atpG"
                     /locus_tag="CLC_0203"
                     /note="mitochondrial ATP synthase gamma subunit; Region:
                     F1-ATPase_gamma; cd12151"
                     /db_xref="CDD:213394"
     misc_feature    order(182224..182226,182239..182241,182257..182259,
                     182269..182271,182278..182283,182287..182292,
                     182299..182304,182461..182463,182467..182478,
                     182557..182562,182569..182574,182581..182583,
                     182935..182937,182944..182949,182956..182958,
                     182974..182976,182983..182988,182992..182997,
                     183004..183009,183016..183018,183022..183039)
                     /gene="atpG"
                     /locus_tag="CLC_0203"
                     /note="core domain interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:213394"
     misc_feature    order(182332..182337,182341..182346,182353..182355,
                     182362..182367,182830..182832,182839..182844,
                     182851..182853)
                     /gene="atpG"
                     /locus_tag="CLC_0203"
                     /note="delta subunit interface [polypeptide binding];
                     other site"
                     /db_xref="CDD:213394"
     misc_feature    order(182566..182568,182599..182616,182839..182841,
                     182848..182853)
                     /gene="atpG"
                     /locus_tag="CLC_0203"
                     /note="epsilon subunit interface [polypeptide binding];
                     other site"
                     /db_xref="CDD:213394"
     gene            183068..184459
                     /gene="atpD"
                     /locus_tag="CLC_0204"
                     /db_xref="GeneID:5399395"
                     /db_xref="Pathema:CLC_0204"
     CDS             183068..184459
                     /gene="atpD"
                     /locus_tag="CLC_0204"
                     /EC_number="3.6.3.14"
                     /note="Produces ATP from ADP in the presence of a proton
                     gradient across the membrane. The beta chain is a
                     regulatory subunit"
                     /codon_start=1
                     /transl_table=11
                     /product="ATP synthase F0F1 subunit beta"
                     /protein_id="YP_001386115.1"
                     /db_xref="GI:153935797"
                     /db_xref="GeneID:5399395"
                     /db_xref="Pathema:CLC_0204"
                     /translation="MSNLGKVIQIIGPIIDIKFDSENLPDLFNALEINAGDRKVIAEV
                     EQHIGDDTIRAIAMEDTEGLKRGMEALDTGKSVSVPVGKEVLGRLFNVLGKPIDGAGE
                     FISEESYPIHRPAPSFEEQSVEPEIFETGIKVIDLLAPYQKGGKIGLFGGAGVGKTVL
                     IQELINNIAKEHGGLSVFTGVGERTREGNDLYYEMKESGVLEKTALVFGQMNEPPGAR
                     MRVALTGLTMSEYFRDQGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATE
                     MGALQERITSTKNGSITSVQAVYVPADDLTDPAPATTFAHLDATTVLSRSITELGIYP
                     AVDPLESSSRMLDPRIIGEEHYEVAIKVKNILERYRELQDIIAILGIDELSEEDKLVV
                     GRARKIQRFLSQPFTVAEQFTGMQGKYVPIKETVRGFKEILEGKHDNIPESAFLFQGT
                     IEDVLKKAQQMEI"
     misc_feature    183071..184453
                     /gene="atpD"
                     /locus_tag="CLC_0204"
                     /note="F0F1 ATP synthase subunit beta; Validated; Region:
                     PRK09280"
                     /db_xref="CDD:236447"
     misc_feature    183086..183289
                     /gene="atpD"
                     /locus_tag="CLC_0204"
                     /note="ATP synthase alpha/beta family, beta-barrel domain;
                     Region: ATP-synt_ab_N; pfam02874"
                     /db_xref="CDD:217261"
     misc_feature    183293..184111
                     /gene="atpD"
                     /locus_tag="CLC_0204"
                     /note="F1 ATP synthase beta subunit, nucleotide-binding
                     domain. The F-ATPase is found in bacterial plasma
                     membranes, mitochondrial inner membranes and in
                     chloroplast thylakoid membranes. It has also been found in
                     the archaea Methanosarcina barkeri. It uses a...; Region:
                     F1-ATPase_beta; cd01133"
                     /db_xref="CDD:238553"
     misc_feature    order(183362..183364,183413..183415,183419..183424,
                     183428..183430,183434..183436,183617..183625,
                     183632..183634,183698..183706,183719..183721,
                     183809..183811,183818..183820,183830..183832,
                     183848..183856,183860..183865,183878..183880,
                     183890..183892,183911..183913,183962..183964,
                     183971..183976,183986..183988,184007..184009,
                     184013..184021,184052..184057,184082..184087,
                     184091..184093,184097..184099)
                     /gene="atpD"
                     /locus_tag="CLC_0204"
                     /note="alpha subunit interaction interface [polypeptide
                     binding]; other site"
                     /db_xref="CDD:238553"
     misc_feature    183521..183541
                     /gene="atpD"
                     /locus_tag="CLC_0204"
                     /note="Walker A motif; other site"
                     /db_xref="CDD:238553"
     misc_feature    order(183527..183529,183536..183544,183614..183619,
                     183626..183628,183797..183799,183809..183811,
                     184061..184066)
                     /gene="atpD"
                     /locus_tag="CLC_0204"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:238553"
     misc_feature    183785..183799
                     /gene="atpD"
                     /locus_tag="CLC_0204"
                     /note="Walker B motif; other site"
                     /db_xref="CDD:238553"
     misc_feature    order(184055..184057,184061..184063,184079..184084)
                     /gene="atpD"
                     /locus_tag="CLC_0204"
                     /note="inhibitor binding site; inhibition site"
                     /db_xref="CDD:238553"
     misc_feature    184133..184447
                     /gene="atpD"
                     /locus_tag="CLC_0204"
                     /note="ATP synthase alpha/beta chain, C terminal domain;
                     Region: ATP-synt_ab_C; pfam00306"
                     /db_xref="CDD:215848"
     gene            184484..184885
                     /gene="atpC"
                     /locus_tag="CLC_0205"
                     /db_xref="GeneID:5400235"
                     /db_xref="Pathema:CLC_0205"
     CDS             184484..184885
                     /gene="atpC"
                     /locus_tag="CLC_0205"
                     /EC_number="3.6.3.14"
                     /note="produces ATP from ADP in the presence of a proton
                     gradient across the membrane; the epsilon subunit is part
                     of the catalytic core of the ATP synthase complex"
                     /codon_start=1
                     /transl_table=11
                     /product="ATP synthase F0F1 subunit epsilon"
                     /protein_id="YP_001386116.1"
                     /db_xref="GI:153934961"
                     /db_xref="GeneID:5400235"
                     /db_xref="Pathema:CLC_0205"
                     /translation="MKDNIELTIFTPEKNIKIGEIKEVITEGLDGDLAILPNHVNMIT
                     YLKPTITKYIDLNGNKNNIFTSSGVLKVEDNKVYIICDASEKPEDIDIKRAENARKRA
                     EERLRNKKEIDVKRAELALFRSIARIKIKEL"
     misc_feature    184487..184882
                     /gene="atpC"
                     /locus_tag="CLC_0205"
                     /note="F0F1 ATP synthase subunit epsilon; Provisional;
                     Region: atpC; PRK13450"
                     /db_xref="CDD:184059"
     misc_feature    184496..184861
                     /gene="atpC"
                     /locus_tag="CLC_0205"
                     /note="mitochondrial ATP synthase delta subunit; Region:
                     F1-ATPase_delta; cd12152"
                     /db_xref="CDD:213395"
     misc_feature    order(184505..184507,184514..184522,184526..184528,
                     184535..184537,184601..184615,184682..184699,
                     184715..184717,184721..184729)
                     /gene="atpC"
                     /locus_tag="CLC_0205"
                     /note="gamma subunit interface [polypeptide binding];
                     other site"
                     /db_xref="CDD:213395"
     misc_feature    order(184520..184522,184568..184570,184616..184621,
                     184625..184627,184673..184675,184679..184687,
                     184727..184732,184736..184738,184745..184750,
                     184754..184756,184772..184774,184826..184831,
                     184835..184840,184847..184849,184853..184855)
                     /gene="atpC"
                     /locus_tag="CLC_0205"
                     /note="epsilon subunit interface [polypeptide binding];
                     other site"
                     /db_xref="CDD:213395"
     misc_feature    order(184550..184552,184556..184558,184574..184579,
                     184583..184585,184589..184591,184595..184603,
                     184643..184645)
                     /gene="atpC"
                     /locus_tag="CLC_0205"
                     /note="LBP interface [polypeptide binding]; other site"
                     /db_xref="CDD:213395"
     gene            185078..185785
                     /locus_tag="CLC_0206"
                     /db_xref="GeneID:5398787"
                     /db_xref="Pathema:CLC_0206"
     CDS             185078..185785
                     /locus_tag="CLC_0206"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386117.1"
                     /db_xref="GI:153935794"
                     /db_xref="GeneID:5398787"
                     /db_xref="Pathema:CLC_0206"
                     /translation="MNKKIKFGILIILLFSIIIVLFIPKNYSKAKDKDDLFFEIVDET
                     NSNIIEVGSNVTFSTKLQNEEIAKEICSYLGLDKDFNKNSINKNGNYNIYFYDEEVSG
                     NISIKECNDENIVMVDFKSFTLNKSFINLKNNLKSYLNLKNKKDYVFEYLKAENDSKN
                     LKKLNDDIILILNKSNARNIEAIKLDNGYSTTAYTKRYTPIKVCGKKIDFNYAVCKYN
                     SEKTYLILGTPQINLTY"
     misc_feature    <185606..185782
                     /locus_tag="CLC_0206"
                     /note="Protein of unknown function (DUF1779); Region:
                     DUF1779; pfam08680"
                     /db_xref="CDD:219967"
     gene            185809..187065
                     /gene="murA-1"
                     /locus_tag="CLC_0207"
                     /db_xref="GeneID:5400074"
                     /db_xref="Pathema:CLC_0207"
     CDS             185809..187065
                     /gene="murA-1"
                     /locus_tag="CLC_0207"
                     /EC_number="2.5.1.7"
                     /note="adds enolpyruvyl to UDP-N-acetylglucosamine as a
                     component of cell wall formation; gram-positive bacteria
                     have 2 copies of MurA which are active"
                     /codon_start=1
                     /transl_table=11
                     /product="UDP-N-acetylglucosamine
                     1-carboxyvinyltransferase"
                     /protein_id="YP_001386118.1"
                     /db_xref="GI:153935043"
                     /db_xref="GeneID:5400074"
                     /db_xref="Pathema:CLC_0207"
                     /translation="MDKIVVNGGSQLKGDVNISTAKNSVLPIIAGSILSGNKCVIDNA
                     PMLEDVFVIGEILKSISAKVNIDEVNNRVIIDSKPVDNLEPDSDLVKKMRASFLLMGP
                     MMSRFGRFKISLPGGCNIGTRPIDLHLKGFTALGAKVNIGHGYVEAVADKLIGNKIYL
                     DFPSVGATENIMMASVMAEGETVIENAAEEPEIEDLGRFLNSIGANIIGAGTDTVRII
                     GVNELKGTTHRPIYDRIEAGTFMIAAAITKSRIKINGVIEEHLKPIIAKLTEMGVDIK
                     IKGETAIVDGRKILNPVDIKTMPYPGFPTDMQAQMMALLATIKGTSIITETIFENRFM
                     HVSEMKRMGADVKIDGRSAVIEGVNKLTGTEVKATDLRAGAALILCALAAEGKTEITD
                     VYHIDRGYVKIEEKLNKLGANIRRVH"
     misc_feature    185809..187056
                     /gene="murA-1"
                     /locus_tag="CLC_0207"
                     /note="UDP-N-acetylglucosamine 1-carboxyvinyltransferase;
                     Region: murA; TIGR01072"
                     /db_xref="CDD:162190"
     misc_feature    185842..187038
                     /gene="murA-1"
                     /locus_tag="CLC_0207"
                     /note="UDP-N-acetylglucosamine enolpyruvyl transferase
                     catalyzes enolpyruvyl transfer as part of the first step
                     in the biosynthesis of peptidoglycan, a component of the
                     bacterial cell wall. The reaction is phosphoenolpyruvate +
                     UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555"
                     /db_xref="CDD:238796"
     misc_feature    order(185860..185871,186496..186507)
                     /gene="murA-1"
                     /locus_tag="CLC_0207"
                     /note="hinge; other site"
                     /db_xref="CDD:238796"
     misc_feature    order(185875..185877,186088..186090,186100..186102,
                     186175..186192,186292..186294,186301..186306,
                     186724..186726)
                     /gene="murA-1"
                     /locus_tag="CLC_0207"
                     /note="active site"
                     /db_xref="CDD:238796"
     gene            187335..188411
                     /gene="spoIID"
                     /locus_tag="CLC_0208"
                     /db_xref="GeneID:5398784"
                     /db_xref="Pathema:CLC_0208"
     CDS             187335..188411
                     /gene="spoIID"
                     /locus_tag="CLC_0208"
                     /note="identified by match to protein family HMM PF08486;
                     match to protein family HMM TIGR02669; match to protein
                     family HMM TIGR02870"
                     /codon_start=1
                     /transl_table=11
                     /product="stage II sporulation protein D"
                     /protein_id="YP_001386119.1"
                     /db_xref="GI:153937283"
                     /db_xref="GeneID:5398784"
                     /db_xref="Pathema:CLC_0208"
                     /translation="MRRLNRYTNINKLVITIISTVCIMLILSFALSFSENKEQKVKET
                     ISKVKLDQKRQEEKIDINKKYKVKSEPQVRVYFVNEKVVKSIPLEEYVKGVVSAEMPA
                     EFHIEALKAQAVAARTYALAHMKGFGENQYNKRINADVCDSVQSQVFMPKDKRIKSWP
                     KEKRNEYWNKIEESVNSTKGNVLVYNNEIVMAPYYFATSNGKTEDSENVFNSEVPYLK
                     SVKSPGEEKAPKFKSSKKISYDQFIKIIKTQYPKCTINKKDINKKIIIKDKTESGSIK
                     KIKIDNIEIKGTEFRKILGLNSSKFSLEFKDNYLIVNCNGYGHNVGMSQWGANSMGKS
                     GKKYDYILKHYYKGVNMEILKYSD"
     misc_feature    187365..188390
                     /gene="spoIID"
                     /locus_tag="CLC_0208"
                     /note="stage II sporulation protein D; Region: spore_II_D;
                     TIGR02870"
                     /db_xref="CDD:234042"
     misc_feature    187551..187889
                     /gene="spoIID"
                     /locus_tag="CLC_0208"
                     /note="Stage II sporulation protein; Region: SpoIID;
                     pfam08486"
                     /db_xref="CDD:219860"
     gene            188943..189689
                     /locus_tag="CLC_0209"
                     /db_xref="GeneID:5400986"
                     /db_xref="Pathema:CLC_0209"
     CDS             188943..189689
                     /locus_tag="CLC_0209"
                     /note="identified by match to protein family HMM PF01551"
                     /codon_start=1
                     /transl_table=11
                     /product="peptidase"
                     /protein_id="YP_001386120.1"
                     /db_xref="GI:153936256"
                     /db_xref="GeneID:5400986"
                     /db_xref="Pathema:CLC_0209"
                     /translation="MEKKPSNKKSNFFKKEGFYVVLFLCLCIVAAIAAISVKSNSHVK
                     KEPIENKVVENKKEKDSAKAIEGNSKSYNNALEVKKEENKENEKEKNKENEKSKQNEK
                     ETAQVSKAENNSFIKPVEGTLARVYSEDPVFWSSTSSYRANLGLDIKAKLNSPVCSIA
                     DGKVEDIVTSSQDGVKVTVNHQNGIKSVYANLDPKVKVTKGQQIKQGSLIGNVGKTTL
                     RAAYEKYGDHLHFAMMKGNKYINPSKHIKY"
     misc_feature    <189351..189686
                     /locus_tag="CLC_0209"
                     /note="Membrane proteins related to metalloendopeptidases
                     [Cell envelope biogenesis, outer membrane]; Region: NlpD;
                     COG0739"
                     /db_xref="CDD:223810"
     misc_feature    189363..189668
                     /locus_tag="CLC_0209"
                     /note="Peptidase family M23; Region: Peptidase_M23;
                     pfam01551"
                     /db_xref="CDD:216566"
     gene            189797..190051
                     /gene="spoIIID"
                     /locus_tag="CLC_0210"
                     /db_xref="GeneID:5401114"
                     /db_xref="Pathema:CLC_0210"
     CDS             189797..190051
                     /gene="spoIIID"
                     /locus_tag="CLC_0210"
                     /note="identified by match to protein family HMM
                     TIGR02844"
                     /codon_start=1
                     /transl_table=11
                     /product="stage III sporulation protein D"
                     /protein_id="YP_001386121.1"
                     /db_xref="GI:153936313"
                     /db_xref="GeneID:5401114"
                     /db_xref="Pathema:CLC_0210"
                     /translation="MKDYIEERVLEVAHYIIDSKATIRKTAKVFGVSKSTIHKDMTER
                     LPKINPQIAEEAKEILDYNKAERHIRGGKATKMKYKAIEG"
     misc_feature    189800..190042
                     /gene="spoIIID"
                     /locus_tag="CLC_0210"
                     /note="Stage III sporulation protein D; Region: SpoIIID;
                     pfam12116"
                     /db_xref="CDD:152551"
     gene            190151..191179
                     /locus_tag="CLC_0211"
                     /db_xref="GeneID:5398809"
                     /db_xref="Pathema:CLC_0211"
     CDS             190151..191179
                     /locus_tag="CLC_0211"
                     /note="identified by match to protein family HMM PF02491;
                     match to protein family HMM PF06723; match to protein
                     family HMM TIGR00904"
                     /codon_start=1
                     /transl_table=11
                     /product="rod shape-determining protein Mbl"
                     /protein_id="YP_001386122.1"
                     /db_xref="GI:153935639"
                     /db_xref="GeneID:5398809"
                     /db_xref="Pathema:CLC_0211"
                     /translation="MFFSVGTDMGIDLGTATVLVYMKGKGVILNEPSVVAIDRNKNKV
                     LAVGQEAREMIGRTPGNIVAIRPMRDGVISDYDITEKMLKYFIGKACGKKKISAPRVV
                     ICIPSEATEVEKRAVMDAARNAGAKKVFLIEEPLAAAIGADLDITKASGSMIIDIGGG
                     TTDIAVISLGGIVVRSSIKIAGDKFDDAVIKYIRKKHKLMIGERTAEDLKIKIGSAFR
                     KGENTSMDIRGRDLVTGLPKNLTVTSDEMREALQDTVNAIAELTHSVLEKTPPELSAD
                     IADKGIIMTGGGALLSGLSDLIESVNKVPVHIAENPVSCVAEGTGKMLEYLDKMGISE
                     SGDGLNLL"
     misc_feature    190166..191164
                     /locus_tag="CLC_0211"
                     /note="rod shape-determining protein Mbl; Provisional;
                     Region: PRK13928"
                     /db_xref="CDD:237563"
     misc_feature    190175..191134
                     /locus_tag="CLC_0211"
                     /note="MreB and similar proteins; Region: MreB_like;
                     cd10225"
                     /db_xref="CDD:212668"
     misc_feature    order(190184..190186,190190..190201,190361..190363,
                     190550..190552,190616..190618,190622..190633,
                     190694..190699,190769..190771,190778..190783,
                     191006..191014,191018..191023,191087..191089,
                     191096..191098)
                     /locus_tag="CLC_0211"
                     /note="nucleotide binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:212668"
     misc_feature    order(190184..190186,190616..190618)
                     /locus_tag="CLC_0211"
                     /note="Mg binding site [ion binding]; other site"
                     /db_xref="CDD:212668"
     misc_feature    order(190262..190264,190310..190312,190334..190336,
                     190595..190597,190601..190603,190661..190663,
                     190757..190759,190763..190765,190832..190834,
                     190856..190858,190865..190867,190955..190957,
                     190964..190966,191060..191062,191132..191134)
                     /locus_tag="CLC_0211"
                     /note="putative protofilament interaction site
                     [polypeptide binding]; other site"
                     /db_xref="CDD:212668"
     misc_feature    order(190577..190582,190604..190606,190982..190990,
                     191063..191065,191069..191071,191078..191080)
                     /locus_tag="CLC_0211"
                     /note="RodZ interaction site [polypeptide binding]; other
                     site"
                     /db_xref="CDD:212668"
     gene            complement(191304..191828)
                     /locus_tag="CLC_0212"
                     /db_xref="GeneID:5399491"
                     /db_xref="Pathema:CLC_0212"
     CDS             complement(191304..191828)
                     /locus_tag="CLC_0212"
                     /note="identified by match to protein family HMM PF06866;
                     match to protein family HMM TIGR02841"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386123.1"
                     /db_xref="GI:153934865"
                     /db_xref="GeneID:5399491"
                     /db_xref="Pathema:CLC_0212"
                     /translation="MNIEKIHYMESLSYYKIANTLKNYLNKDTIIICIGTDRCIGDCL
                     GPLVGTILRYKNIPLKLYGTLDEPIHALNIEKTIKNIKNSYPNSSIIGIDACLGDKDN
                     IGQIQVRNFPIQPGKGVGKTLPKVGDCSIVGIVDSNENCDIFTSANTRLSLILNIAKV
                     IANSILQCCYILDI"
     misc_feature    complement(191337..191816)
                     /locus_tag="CLC_0212"
                     /note="Protein of unknown function (DUF1256); Region:
                     DUF1256; pfam06866"
                     /db_xref="CDD:115518"
     gene            complement(191877..192599)
                     /locus_tag="CLC_0213"
                     /db_xref="GeneID:5399883"
                     /db_xref="Pathema:CLC_0213"
     CDS             complement(191877..192599)
                     /locus_tag="CLC_0213"
                     /note="identified by match to protein family HMM PF01171"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386124.1"
                     /db_xref="GI:153937579"
                     /db_xref="GeneID:5399883"
                     /db_xref="Pathema:CLC_0213"
                     /translation="MQKLLGKLRRAVGDFNLIQNGDKIAVGLSGGKDSIVLLHLLKKY
                     QSFSPEKFDLIAITLDTMTGADFSPLENVCSNINVPLYIYKTPIKEIVFDLRKEKNPC
                     SLCANLRRGALNNYSKKLGCNKIALGHHKNDAIETLLMSMLYEGRVSCFSPKTYLNKA
                     NITIIRPMIYIDEIAIKSMIKRYDLPIIKNPCPANGNTKRQYMKELTYTLEKDIPKVK
                     DRLLGCLTNINQINLWDKDKIQ"
     misc_feature    complement(191889..192599)
                     /locus_tag="CLC_0213"
                     /note="tRNA 2-thiocytidine biosynthesis protein TtcA;
                     Provisional; Region: PRK10696"
                     /db_xref="CDD:236737"
     misc_feature    complement(192006..192533)
                     /locus_tag="CLC_0213"
                     /note="This is a subfamily of Adenine nucleotide alpha
                     hydrolases superfamily.Adeninosine nucleotide alpha
                     hydrolases superfamily  includes N type ATP PPases and ATP
                     sulphurylases. It forms a apha/beta/apha fold which  binds
                     to Adenosine group.  This subfamily; Region:
                     Alpha_ANH_like_II; cd01993"
                     /db_xref="CDD:238951"
     misc_feature    complement(order(192420..192422,192426..192428,
                     192498..192509,192513..192521))
                     /locus_tag="CLC_0213"
                     /note="Ligand Binding Site [chemical binding]; other site"
                     /db_xref="CDD:238951"
     gene            192827..192902
                     /locus_tag="CLC_0214"
                     /db_xref="GeneID:5399527"
     tRNA            192827..192902
                     /locus_tag="CLC_0214"
                     /product="tRNA-Thr"
                     /db_xref="GeneID:5399527"
     gene            192908..192992
                     /locus_tag="CLC_0215"
                     /db_xref="GeneID:5399638"
     tRNA            192908..192992
                     /locus_tag="CLC_0215"
                     /product="tRNA-Tyr"
                     /db_xref="GeneID:5399638"
     gene            193006..193081
                     /locus_tag="CLC_0217"
                     /db_xref="GeneID:5398237"
     tRNA            193006..193081
                     /locus_tag="CLC_0217"
                     /product="tRNA-Val"
                     /db_xref="GeneID:5398237"
     gene            193099..193174
                     /locus_tag="CLC_0219"
                     /db_xref="GeneID:5399325"
     tRNA            193099..193174
                     /locus_tag="CLC_0219"
                     /product="tRNA-Thr"
                     /db_xref="GeneID:5399325"
     gene            193180..193264
                     /locus_tag="CLC_0220"
                     /db_xref="GeneID:5400797"
     tRNA            193180..193264
                     /locus_tag="CLC_0220"
                     /product="tRNA-Tyr"
                     /db_xref="GeneID:5400797"
     gene            193580..194755
                     /gene="metK"
                     /locus_tag="CLC_0222"
                     /db_xref="GeneID:5399403"
                     /db_xref="Pathema:CLC_0222"
     CDS             193580..194755
                     /gene="metK"
                     /locus_tag="CLC_0222"
                     /EC_number="2.5.1.6"
                     /note="catalyzes the formation of S-adenosylmethionine
                     from methionine and ATP; methionine adenosyltransferase"
                     /codon_start=1
                     /transl_table=11
                     /product="S-adenosylmethionine synthetase"
                     /protein_id="YP_001386125.1"
                     /db_xref="GI:153936792"
                     /db_xref="GeneID:5399403"
                     /db_xref="Pathema:CLC_0222"
                     /translation="MRKLFTSESVTEGHPDKICDQISDAVLDAILDKDPNGRVACETA
                     VTTGMVMVMGEISTKCYVDIPKLVRETIRGIGYDRAKYGFDCETCSVITSIDEQSVDI
                     AMGVDEALESKKGEMDKLDAVGAGDQGMMFGFATNETKEYMPMPIEMAHKLSRRLSEV
                     RKNGTLPYLRPDGKTQVTVEYENGKPVRIDAIVISTQHGPEVYLEQIEKDIKEHVIKV
                     IVPSELLDENTKYFINPTGRFVVGGPQGDSGLTGRKIIVDTYGGYGRHGGGAFSGKDP
                     TKVDRSAAYAARWVAKNLVAAGVADKLEIQLAYAIGVAKPVSISVDTFGTGKMTDEEI
                     VSIVNKVFDLRPGAIIRDLDLRRPIYKQVAAYGHFGRTDIDVPWERLDKVEEIKKHI"
     misc_feature    193580..194746
                     /gene="metK"
                     /locus_tag="CLC_0222"
                     /note="S-adenosylmethionine synthetase; Validated; Region:
                     PRK05250"
                     /db_xref="CDD:235374"
     misc_feature    193580..193876
                     /gene="metK"
                     /locus_tag="CLC_0222"
                     /note="S-adenosylmethionine synthetase, N-terminal domain;
                     Region: S-AdoMet_synt_N; pfam00438"
                     /db_xref="CDD:201226"
     misc_feature    193940..194296
                     /gene="metK"
                     /locus_tag="CLC_0222"
                     /note="S-adenosylmethionine synthetase, central domain;
                     Region: S-AdoMet_synt_M; pfam02772"
                     /db_xref="CDD:217221"
     misc_feature    194300..194719
                     /gene="metK"
                     /locus_tag="CLC_0222"
                     /note="S-adenosylmethionine synthetase, C-terminal domain;
                     Region: S-AdoMet_synt_C; pfam02773"
                     /db_xref="CDD:111646"
     gene            194946..197180
                     /locus_tag="CLC_0223"
                     /db_xref="GeneID:5401069"
                     /db_xref="Pathema:CLC_0223"
     CDS             194946..197180
                     /locus_tag="CLC_0223"
                     /note="identified by match to protein family HMM
                     TIGR01448"
                     /codon_start=1
                     /transl_table=11
                     /product="recombinase D"
                     /protein_id="YP_001386126.1"
                     /db_xref="GI:153936042"
                     /db_xref="GeneID:5401069"
                     /db_xref="Pathema:CLC_0223"
                     /translation="MQEIQGFIEDILFKNDENGYVVAKIRKKKELITIVGCMPYITEG
                     QNLKLKGEWVIHPQFGNQFKVEICEEIVPDTVAGIERYLSSGIISGIGPVTAKKIVKK
                     FGEETLNILDNNIERLTEIEGIGKKKIEVIYDSYIKQNEVRNIMMFFQNYGVTPNQCM
                     KVYKRFGENSISIVKENPYILTEEIRGIGFKTADKIARSLGIASNSPFRIQSGINYII
                     NGFCSLGNTYMPLEKLISEAMDILGVKEEEIHENIYNNVAENKLKIEKVKERSCVFTL
                     PYYYCELGVTKKILSLSLSQYDNLNINIEDEIVRFEKNNNIKFHDSQREAIKGALENG
                     VEIITGGPGTGKTTIINCITEIFEKANMKVYMAAPTGRAAKRMSETTGREAKTIHRML
                     EMGVSEDDTEEVFSKGEETPLECDVVIIDEASMIDIILMNTLLKAIALGTRIIIVGDV
                     DQLPSVGPGNVLRDLIESKCVKVVRLKEIFRQSKESMIIVNAHRINDGEMPIINKKDK
                     DFYFIECSEPKKIVNTLLELSNRRLPKFNKSWHKIHDIQILSPMRKGILGVSSLNKEL
                     QSVLNPKNDSKKEMEFKDYIFRVGDKVMQTKNNYSLKWTRASGEGEAEGLGIFNGDVG
                     YIEDIDEEKETIQVLFDNERRVVYENLYLDEIDLAYAVTIHKSQGSEFPVVIMPAFKG
                     PPLLMNRNLLYTGITRAKRLVVLVGSLKAINFMVQNDKIFERYSLLKWRISNILDTEI
                     INGE"
     misc_feature    194955..197105
                     /locus_tag="CLC_0223"
                     /note="helicase, putative, RecD/TraA family; Region:
                     recD_rel; TIGR01448"
                     /db_xref="CDD:233418"
     misc_feature    195906..196442
                     /locus_tag="CLC_0223"
                     /note="AAA domain; Region: AAA_30; pfam13604"
                     /db_xref="CDD:222258"
     misc_feature    196704..197063
                     /locus_tag="CLC_0223"
                     /note="Family description; Region: UvrD_C_2; pfam13538"
                     /db_xref="CDD:222209"
     gene            197206..198228
                     /locus_tag="CLC_0224"
                     /db_xref="GeneID:5401030"
                     /db_xref="Pathema:CLC_0224"
     CDS             197206..198228
                     /locus_tag="CLC_0224"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386127.1"
                     /db_xref="GI:153935299"
                     /db_xref="GeneID:5401030"
                     /db_xref="Pathema:CLC_0224"
                     /translation="MSLLKRSKKEYEVNEFSEIILNWCKGREKFLNVISMPYNTTDFF
                     VDSILYLIKNRNNILYITNEKEKSIDIIQNIKKRSDFRQYSYIKKSRLDIISNLKVTN
                     FNVAFNMNEKFDFIIYDDLSSYANHNKDSIKDLILSKLTNEGKCIMYSIESLFPHSRS
                     ICIPFKKDRMPIIEPRTLLTRINISNEIPFIIYDYMKWSFRSKRKVIIYTPSYFISEN
                     LYNYFQNYINKIDVNIILDMELGSSKSLFNFEKMKEGVFITHLFYHEFSKLKDTDLII
                     YGSDKNKFNYKELIYLCGTIGRGEYDFKGEIIFLANMETVHMEKAKNIIRSFNKEAWE
                     LGFLTI"
     misc_feature    <197536..198222
                     /locus_tag="CLC_0224"
                     /note="Superfamily II DNA/RNA helicase required for DNA
                     uptake (late competence protein) [DNA replication,
                     recombination, and repair]; Region: comFA; COG4098"
                     /db_xref="CDD:226583"
     gene            198201..198878
                     /locus_tag="CLC_0225"
                     /db_xref="GeneID:5400876"
                     /db_xref="Pathema:CLC_0225"
     CDS             198201..198878
                     /locus_tag="CLC_0225"
                     /note="identified by match to protein family HMM PF00156"
                     /codon_start=1
                     /transl_table=11
                     /product="ComF-like protein"
                     /protein_id="YP_001386128.1"
                     /db_xref="GI:153937133"
                     /db_xref="GeneID:5400876"
                     /db_xref="Pathema:CLC_0225"
                     /translation="MGTGIFNYIKYIIECIGEVIYPYENKCVICEKYIEEDLICKECF
                     SSIKRCSDVKIIEKGKDCFPAFPTCYYSGIMMELILNLKYKGDFKSGEVIANLMCKKV
                     KEVNINTDIITFVPSSKKSYKKRGYNQSEYLAKIISKNINVPIAHCLKKYMNTKDQIG
                     LNGLERWLNVENSFKVYNEKCIKNKKVLLIDDVLTTGATSFYCANELKKRGAKEIFIL
                     TAAKSDV"
     misc_feature    198243..198872
                     /locus_tag="CLC_0225"
                     /note="Predicted amidophosphoribosyltransferases [General
                     function prediction only]; Region: ComFC; COG1040"
                     /db_xref="CDD:223970"
     misc_feature    198480..198860
                     /locus_tag="CLC_0225"
                     /note="Phosphoribosyl transferase (PRT)-type I domain;
                     Region: PRTases_typeI; cd06223"
                     /db_xref="CDD:206754"
     misc_feature    order(198546..198548,198573..198575,198771..198779,
                     198783..198797)
                     /locus_tag="CLC_0225"
                     /note="active site"
                     /db_xref="CDD:206754"
     gene            199303..199830
                     /gene="yfiA"
                     /locus_tag="CLC_0226"
                     /db_xref="GeneID:5399187"
                     /db_xref="Pathema:CLC_0226"
     CDS             199303..199830
                     /gene="yfiA"
                     /locus_tag="CLC_0226"
                     /note="identified by match to protein family HMM PF02482;
                     match to protein family HMM TIGR00741"
                     /codon_start=1
                     /transl_table=11
                     /product="ribosomal subunit interface protein"
                     /protein_id="YP_001386129.1"
                     /db_xref="GI:153936354"
                     /db_xref="GeneID:5399187"
                     /db_xref="Pathema:CLC_0226"
                     /translation="MKITVIGKNIEITNALRETVEKKLSKLERFFNPDVVATATLSVH
                     KNKQTIEVTIPFHGVILRGEETTEDMYASIDMVIDKLEGQVRKQKTKLQRKIHDGSLR
                     FQYIPDYESEENKETQIVKTKKFAMKPMSSEEAVLQMELLGHNFFVYQNADTEEVNVI
                     YRRKDGNYGLIEPEF"
     misc_feature    199306..199575
                     /gene="yfiA"
                     /locus_tag="CLC_0226"
                     /note="RaiA ('ribosome-associated inhibitor A', also known
                     as Protein Y (PY), YfiA, and SpotY,  is a stress-response
                     protein that binds the ribosomal subunit interface and
                     arrests translation by interfering with aminoacyl-tRNA
                     binding to the ribosomal...; Region: RaiA; cd00552"
                     /db_xref="CDD:238308"
     misc_feature    order(199312..199314,199318..199320,199324..199326,
                     199378..199380,199387..199389,199405..199410,
                     199420..199422,199459..199461,199468..199479,
                     199486..199488,199492..199494,199501..199503,
                     199507..199509,199516..199518,199558..199563,
                     199573..199575)
                     /gene="yfiA"
                     /locus_tag="CLC_0226"
                     /note="30S subunit binding site; other site"
                     /db_xref="CDD:238308"
     gene            200058..202565
                     /gene="secA"
                     /locus_tag="CLC_0227"
                     /db_xref="GeneID:5398526"
                     /db_xref="Pathema:CLC_0227"
     CDS             200058..202565
                     /gene="secA"
                     /locus_tag="CLC_0227"
                     /note="functions in protein export; can interact with
                     acidic membrane phospholipids and the SecYEG protein
                     complex; binds to preproteins; binds to ATP and undergoes
                     a conformational change to promote membrane insertion of
                     SecA/bound preprotein; ATP hydrolysis appears to drive
                     release of the preprotein from SecA and deinsertion of
                     SecA from the membrane; additional proteins SecD/F/YajC
                     aid SecA recycling; exists in an equilibrium between
                     monomers and dimers; may possibly form higher order
                     oligomers; proteins in this cluster correspond SecA1;
                     SecA2 is not essential and seems to play a role in
                     secretion of a subset of proteins"
                     /codon_start=1
                     /transl_table=11
                     /product="preprotein translocase subunit SecA"
                     /protein_id="YP_001386130.1"
                     /db_xref="GI:153935608"
                     /db_xref="GeneID:5398526"
                     /db_xref="Pathema:CLC_0227"
                     /translation="MGILNKIFGTYSERELRRVNPIVNKIEALDEKMQSLKDEDFKLK
                     TEEFKSRLEKGEKLDDILPEAFALVREAAHRTIGLKHYREQLIGGVVLHQGRIGEMKT
                     GEGKTLVATLPAYVNALTGKGVHIVTVNDYLAKRDRDLMAPVYEFLGLKVGVILHNLN
                     NEERQEAYGSDITYGTNSEFGFDYLRDNMVVYKEERVQRKLNFSIVDEVDSILIDEAR
                     TPLIISGQGEKSTEFYKVADYFTKSLIAEKDFTIDEKANSAMLTDEGVNKAENFFKVD
                     NYADAENMEIQHHVVQALKANYVMKKDKDYMIKDGEILIVDEFTGRAMEGRRYSDGLH
                     QAIEAKEGVRVERESKTLATITYQNYFRMYNKLSGMTGTAQTEENEFREIYGLDVIVI
                     PTHEPIARIDNADVVYKSEKGKFKAIVDEIVERYKKGQPMLVGTVSIEKSEMLSSMLK
                     KKGVPHQVLNAKYHEKEAEIISHAGEYGMVTIATNMAGRGTDIKLTKEAEEAGGLMII
                     GTERHESRRIDNQLRGRSGRQGDPGESRFFVSLEDDLMRIFGSERIQGIVDKLGLAED
                     EAIESKMVSSAIESAQKKVEGNNFDIRKTLLQYDDVINKQREIIYKQRSEVLEGEDLK
                     DQIRDMIRDVVYTAVNSHISGVEEEFQTELQNLVNYLEDICLPKALVKVKDISNLSDE
                     EIKEKLLEAVENIYIRKEKEIGEEQIREIERVILLRVVDTKWMDHIDDMDHLKQGIGL
                     RAYRQQDPVQAYQFEGSEMFEEMIYNIKVDTVRYLFHVEVEKAPEREKVAKETSTNYD
                     EDSVKKQPIKKENRIGRNDMCPCGSGKKYKNCCGRMA"
     misc_feature    200058..202562
                     /gene="secA"
                     /locus_tag="CLC_0227"
                     /note="preprotein translocase subunit SecA; Reviewed;
                     Region: PRK12904"
                     /db_xref="CDD:237259"
     misc_feature    200337..>200696
                     /gene="secA"
                     /locus_tag="CLC_0227"
                     /note="DEAD-like helicases superfamily. A diverse family
                     of proteins involved in ATP-dependent RNA or DNA
                     unwinding. This domain contains the ATP-binding region;
                     Region: DEXDc; cl17251"
                     /db_xref="CDD:247805"
     misc_feature    200364..200378
                     /gene="secA"
                     /locus_tag="CLC_0227"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:238005"
     misc_feature    200676..200687
                     /gene="secA"
                     /locus_tag="CLC_0227"
                     /note="putative Mg++ binding site [ion binding]; other
                     site"
                     /db_xref="CDD:238005"
     misc_feature    200733..201071
                     /gene="secA"
                     /locus_tag="CLC_0227"
                     /note="SecA preprotein cross-linking domain; Region:
                     SecA_PP_bind; smart00958"
                     /db_xref="CDD:214938"
     misc_feature    202500..202556
                     /gene="secA"
                     /locus_tag="CLC_0227"
                     /note="SEC-C motif; Region: SEC-C; pfam02810"
                     /db_xref="CDD:202406"
     gene            202929..203906
                     /gene="prfB"
                     /locus_tag="CLC_0228"
                     /db_xref="GeneID:5401833"
                     /db_xref="Pathema:CLC_0228"
     CDS             202929..203906
                     /gene="prfB"
                     /locus_tag="CLC_0228"
                     /note="catalyzes the release of newly synthesized
                     polypeptide chains at the stop codons UAA and UGA"
                     /codon_start=1
                     /transl_table=11
                     /product="peptide chain release factor 2"
                     /protein_id="YP_001386131.1"
                     /db_xref="GI:153936079"
                     /db_xref="GeneID:5401833"
                     /db_xref="Pathema:CLC_0228"
                     /translation="MQNPNFWNDIKEAQKITSEEKYLKDKLTKYNHLRNTIEDIISLC
                     EMLSEEDDDMKKEIISEYKNIKEETDRFKIETLLSGEYDRNNVIMTLHSGVGGTDAQD
                     WTDMLFRMYTRWAEKEGFAVKIMDLLEAEDAGIKSVTLKITGEFVYGYLKSEKGIHRL
                     VRISPFNANGKRQTSFASIEVLPELTDDQEIEIRSEDLKIDTYRAGGAGGQHVNKTES
                     AVRITHMPTGIIVQCQNERSQHTNKETAMKVLKSKLVELKERSHKEKIEDLTGELKDM
                     GWGSQIRSYVFHPYNLVKDHRTGAETSNVDSVMNGDINIFITQYLKGNF"
     misc_feature    202929..203903
                     /gene="prfB"
                     /locus_tag="CLC_0228"
                     /note="peptide chain release factor 2; Provisional;
                     Region: PRK05589"
                     /db_xref="CDD:235520"
     misc_feature    203061..203390
                     /gene="prfB"
                     /locus_tag="CLC_0228"
                     /note="PCRF domain; Region: PCRF; pfam03462"
                     /db_xref="CDD:217573"
     misc_feature    203478..203819
                     /gene="prfB"
                     /locus_tag="CLC_0228"
                     /note="RF-1 domain; Region: RF-1; pfam00472"
                     /db_xref="CDD:201249"
     gene            complement(204027..205391)
                     /locus_tag="CLC_0229"
                     /db_xref="GeneID:5400550"
                     /db_xref="Pathema:CLC_0229"
     CDS             complement(204027..205391)
                     /locus_tag="CLC_0229"
                     /EC_number="3.4.-.-"
                     /note="identified by match to protein family HMM PF04389"
                     /codon_start=1
                     /transl_table=11
                     /product="peptidase"
                     /protein_id="YP_001386132.1"
                     /db_xref="GI:153935137"
                     /db_xref="GeneID:5400550"
                     /db_xref="Pathema:CLC_0229"
                     /translation="MRNFAKLFYITIILTLLCFSIQTTLFIKSFNINSVLNNINLISS
                     NEFKGRLPGSIENRQVSEYIKDNFKSNNLLPFEENYFHSFGCFYPSKIEGNPYLKVID
                     SQGNLVKNYSYGKDFKEDMLNFRENAFSFSNENVIIQNDFMNINYNDGNFLIYSTNDY
                     GSNFRSSFVKEAPYNMYIVTNKKVFSEIKDFIKSGHKIICFIPYSIKETELNNVVGYI
                     KGINPNNDPIIISSHFDHLGEDLNGTIYSGALDNASGTSFMLELVKYIKSLGTPNRDI
                     IFVSFNAEEFGCLGSKAFVDKYYSKIKNSTLLNFDMIGGSESVPLCIMGSDKDTANTP
                     LIKELSVLCSFKNINFNYMFENASDHYFFREKGINAITFCDNDTSKIHTPKDKIEFIN
                     KNSIKRCYNVASLKIINSAFSGNLFYIYYKEILIISFILLFVFIKRQQRNKTKIINLN
                     KYLL"
     misc_feature    complement(<205134..205256)
                     /locus_tag="CLC_0229"
                     /note="Zinc peptidases M18, M20, M28, and M42; Region:
                     Zinc_peptidase_like; cl14876"
                     /db_xref="CDD:246748"
     misc_feature    complement(204162..204761)
                     /locus_tag="CLC_0229"
                     /note="M28 Zn-Peptidases containing a PA domain insert;
                     Region: M28_like_PA; cd03877"
                     /db_xref="CDD:193499"
     misc_feature    complement(204201..204701)
                     /locus_tag="CLC_0229"
                     /note="Peptidase family M28; Region: Peptidase_M28;
                     pfam04389"
                     /db_xref="CDD:218057"
     misc_feature    complement(order(204246..204248,204459..204461,
                     204537..204542,204639..204641,204693..204695))
                     /locus_tag="CLC_0229"
                     /note="metal binding site [ion binding]; metal-binding
                     site"
                     /db_xref="CDD:193499"
     gene            205499..207655
                     /locus_tag="CLC_0230"
                     /db_xref="GeneID:5400685"
                     /db_xref="Pathema:CLC_0230"
     CDS             205499..207655
                     /locus_tag="CLC_0230"
                     /note="identified by match to protein family HMM PF00575"
                     /codon_start=1
                     /transl_table=11
                     /product="RNA-binding protein"
                     /protein_id="YP_001386133.1"
                     /db_xref="GI:153934599"
                     /db_xref="GeneID:5400685"
                     /db_xref="Pathema:CLC_0230"
                     /translation="MNNINSILSKELNISIKYIDAVIDLLDQGNTVPFIARYRKEVTG
                     GMSDETLRELFERLTYLRNLSSKKEDVIRLIEEQGKLTEELKTSIINCKTVTEVEDLY
                     RPYRPKRRTRATIAEEKGLKPLAEIILEGNFKEDIKVYASEFINEEKEVKTIEEALQG
                     AMDIISEVISDEAEYRKWIRNFVFNEGVIETKGESMEPTPYEMYYDYKENVKNIPPHR
                     ILAINRGEKEKILTAKVTCNEDKIIDYLKSRSLKGNKETDVYIEESVKDSLKRLIYPS
                     IEREIRSELTEKGEEGAIKIFKENLKALLMQAPIKDKVVLGYDPGFRTGCKIAVLDET
                     GKLLDTATVYATAPQNDVEGSIKVLKKLIYKYDVDVISLGNGTASRESEEVISKMLKE
                     IKEEKGKDIYYVIVSEAGASVYSASKLATEEYPDINVSLRGAISICRRLQDPLAELVK
                     IDPKSIGVGQYQHDVSQKKLDESLKGVVEDCVNAVGVDLNTATPSLLSYISGINSSIA
                     KNIVAYREEIGKFKNRKELLKVKRLGQKAFEQCAGFLRVMESKEPLDNTGVHPESYEG
                     TKKFLSLLQYDIKDVKNNKLQDIDDRVNNIGLDDICNKIDIGKPTLLDIIKEIKKPGR
                     DPREDLPKPILKTGIVDITQLKPDMVLMGTVRNVADFGAFVDIGVHQDGLVHISQLSD
                     RFVKHPLDIVKVGDIVEVRILEVDKKRNRISLSMKK"
     misc_feature    205499..207652
                     /locus_tag="CLC_0230"
                     /note="Transcriptional accessory protein [Transcription];
                     Region: Tex; COG2183"
                     /db_xref="CDD:225094"
     misc_feature    205520..206074
                     /locus_tag="CLC_0230"
                     /note="Tex-like protein N-terminal domain; Region: Tex_N;
                     pfam09371"
                     /db_xref="CDD:150144"
     misc_feature    206435..206743
                     /locus_tag="CLC_0230"
                     /note="Likely ribonuclease with RNase H fold; Region:
                     YqgFc; smart00732"
                     /db_xref="CDD:128971"
     misc_feature    207443..207643
                     /locus_tag="CLC_0230"
                     /note="S1_Tex: The C-terminal S1 domain of a transcription
                     accessory factor called Tex, which has been characterized
                     in Bordetella pertussis and Pseudomonas aeruginosa. The
                     tex gene is essential in Bortella pertusis and is named
                     for its role in toxin expression; Region: S1_Tex; cd05685"
                     /db_xref="CDD:240190"
     misc_feature    order(207464..207466,207488..207490,207518..207520,
                     207524..207526)
                     /locus_tag="CLC_0230"
                     /note="RNA binding site [nucleotide binding]; other site"
                     /db_xref="CDD:240190"
     gene            207939..208532
                     /locus_tag="CLC_0231"
                     /db_xref="GeneID:5400359"
                     /db_xref="Pathema:CLC_0231"
     CDS             207939..208532
                     /locus_tag="CLC_0231"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386134.1"
                     /db_xref="GI:153937095"
                     /db_xref="GeneID:5400359"
                     /db_xref="Pathema:CLC_0231"
                     /translation="MKSSKLNKLVKISVLGTIGFLLMFIEIPIPIFPEFLKIDISDIP
                     ALVGGFALGPVAGILIEFMKNILHGIFKGSTVFVGEIANFLVGSVLVGISAYIYKRDK
                     TKKGAIVGLAIGAICMSIVAGILNYYVLLPLYEKALNFPIKAIVAIGNKLNPKIVDLK
                     SFIFWSIIPFNLLKGVVVSLITAAIYKNVSPILHERK"
     misc_feature    207948..208520
                     /locus_tag="CLC_0231"
                     /note="Predicted membrane protein [Function unknown];
                     Region: COG3601"
                     /db_xref="CDD:226129"
     misc_feature    207957..208496
                     /locus_tag="CLC_0231"
                     /note="Protein of unknown function (DUF3816); Region:
                     DUF3816; pfam12822"
                     /db_xref="CDD:221791"
     gene            208943..210592
                     /locus_tag="CLC_0232"
                     /db_xref="GeneID:5399607"
                     /db_xref="Pathema:CLC_0232"
     CDS             208943..210592
                     /locus_tag="CLC_0232"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386135.1"
                     /db_xref="GI:153936476"
                     /db_xref="GeneID:5399607"
                     /db_xref="Pathema:CLC_0232"
                     /translation="MPSISNINNVYSNNTKKISSKISFEIDQIFAAKVVGEGVSPEEV
                     ILKLMDGWQFKASIEDLKGKLPDGLLKFKVLGFEEGKLILKFLEGNLVEGQQKEQNPI
                     EELLLKENIKLNKEDYVLLEKMIKHNIPLTKDNILKVVNLSNFMGKLKNSPQEGDSFI
                     QNYIKGKGMDLRSAKGQEINNVLKGLFNELQTLTEEDLFILLENNVELTEENVKAFKE
                     VFKESSVYNKVNNINKELNKSSIDNKQIITEKNTSNGDTLVKENLQSTEMESAINNKS
                     ENVVKNELISTFKTLMATGKEENISIVRDLILEEKDINGILKNFTKEEQEMLGLKPKT
                     EDTEATEQSLTSETTKNIKTKPIEVLANKGQVDSSSIKEQINSKTNEIKDIVKNLIDT
                     LKDTNNSSYDKIIGTLKNNINNFKMFNTISNEYYYLDLPLNFKENECDCKIIIKDERG
                     KGKKIDSSNVKIATSISTANMDIVDAYITLKNSNMEINIKTIKEWVNLLDKGKNKLIE
                     DMSSMGYNIFIKVEEKAEIFNISNCREFFNDNNLNAIDIKA"
     gene            210613..210873
                     /locus_tag="CLC_0233"
                     /db_xref="GeneID:5400151"
                     /db_xref="Pathema:CLC_0233"
     CDS             210613..210873
                     /locus_tag="CLC_0233"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386136.1"
                     /db_xref="GI:153935408"
                     /db_xref="GeneID:5400151"
                     /db_xref="Pathema:CLC_0233"
                     /translation="MNERKKAAALKYEESYTSPVVTAAGMGYVADKILEKASEEKVPI
                     VYDKELANLLTNIDIGDSIPYELYDAVAKVIAYVMEIDERIK"
     misc_feature    210619..210870
                     /locus_tag="CLC_0233"
                     /note="Uncharacterized homolog of the cytoplasmic domain
                     of flagellar protein FhlB [Function unknown]; Region:
                     COG2257"
                     /db_xref="CDD:225166"
     gene            210887..211573
                     /locus_tag="CLC_0234"
                     /db_xref="GeneID:5401365"
                     /db_xref="Pathema:CLC_0234"
     CDS             210887..211573
                     /locus_tag="CLC_0234"
                     /note="identified by match to protein family HMM PF00149"
                     /codon_start=1
                     /transl_table=11
                     /product="Ser/Thr protein phosphatase"
                     /protein_id="YP_001386137.1"
                     /db_xref="GI:153934587"
                     /db_xref="GeneID:5401365"
                     /db_xref="Pathema:CLC_0234"
                     /translation="MSLYAISDLHLAFNEDKPMDIFGDKWFMHHERIKENWENKITKD
                     DTVLIAGDISWSMKIEEGLHDLEWIHNLKGRKILIKGNHDYWWSSINKLNKLYEDMNF
                     IQNNFFVYENYAICGTRGWNPKPSDNFTAHDEKIYRRELIRLRLSLDAAKKAGMEKFI
                     VMLHYPATNDKFEDSPITELLKEYNVEKVIYGHLHGISTTRSLEGLRDGVEYYLTSCD
                     HINFDPVKIT"
     misc_feature    210893..211558
                     /locus_tag="CLC_0234"
                     /note="Deinococcus radiodurans DR1119 and related
                     proteins, metallophosphatase domain; Region: MPP_DR1119;
                     cd07393"
                     /db_xref="CDD:163636"
     misc_feature    210893..211471
                     /locus_tag="CLC_0234"
                     /note="Calcineurin-like phosphoesterase; Region:
                     Metallophos; pfam00149"
                     /db_xref="CDD:215750"
     misc_feature    order(210908..210910,210914..210916,211040..211042,
                     211130..211135,211376..211378,211463..211465,
                     211469..211471)
                     /locus_tag="CLC_0234"
                     /note="putative active site [active]"
                     /db_xref="CDD:163636"
     misc_feature    order(210908..210910,210914..210916,211040..211042,
                     211130..211132,211376..211378,211463..211465,
                     211469..211471)
                     /locus_tag="CLC_0234"
                     /note="putative metal binding site [ion binding]; other
                     site"
                     /db_xref="CDD:163636"
     gene            211657..211938
                     /locus_tag="CLC_0235"
                     /db_xref="GeneID:5399464"
                     /db_xref="Pathema:CLC_0235"
     CDS             211657..211938
                     /locus_tag="CLC_0235"
                     /note="identified by match to protein family HMM PF01022"
                     /codon_start=1
                     /transl_table=11
                     /product="ArsR family transcriptional regulator"
                     /protein_id="YP_001386138.1"
                     /db_xref="GI:153937457"
                     /db_xref="GeneID:5399464"
                     /db_xref="Pathema:CLC_0235"
                     /translation="MDNDYAKYNDIAELLKVLAHPVRICIVKGLLEKGECNVSHMQNC
                     LDMPQSTISQHLQKLKSAGIIEGDRNGLQINYHVSNKKAEQLIEILLNE"
     misc_feature    211699..211926
                     /locus_tag="CLC_0235"
                     /note="Arsenical Resistance Operon Repressor and similar
                     prokaryotic, metal regulated homodimeric repressors. ARSR
                     subfamily of helix-turn-helix bacterial transcription
                     regulatory proteins (winged helix topology). Includes
                     several proteins that appear to...; Region: HTH_ARSR;
                     cd00090"
                     /db_xref="CDD:238042"
     misc_feature    order(211699..211704,211708..211710,211717..211719,
                     211726..211731,211738..211740,211744..211746,
                     211753..211755,211843..211845,211909..211914,
                     211918..211926)
                     /locus_tag="CLC_0235"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238042"
     misc_feature    order(211702..211707,211717..211725,211765..211773,
                     211798..211809,211813..211818,211825..211830,
                     211834..211839,211855..211863,211876..211884)
                     /locus_tag="CLC_0235"
                     /note="putative DNA binding site [nucleotide binding];
                     other site"
                     /db_xref="CDD:238042"
     misc_feature    order(211765..211767,211774..211776,211909..211911)
                     /locus_tag="CLC_0235"
                     /note="putative Zn2+ binding site [ion binding]; other
                     site"
                     /db_xref="CDD:238042"
     gene            211978..214431
                     /locus_tag="CLC_0236"
                     /db_xref="GeneID:5401316"
                     /db_xref="Pathema:CLC_0236"
     CDS             211978..214431
                     /locus_tag="CLC_0236"
                     /note="identified by match to protein family HMM PF00070;
                     match to protein family HMM PF00581; match to protein
                     family HMM PF01206; match to protein family HMM PF02852;
                     match to protein family HMM PF07992"
                     /codon_start=1
                     /transl_table=11
                     /product="pyridine nucleotide-disulfide oxidoreductase"
                     /protein_id="YP_001386139.1"
                     /db_xref="GI:153936679"
                     /db_xref="GeneID:5401316"
                     /db_xref="Pathema:CLC_0236"
                     /translation="MNKKVLIIGGVAGGASAAARLRRLDDNAQIIMFERGEHISFANC
                     GLPYYIGETIKERDNLLVQTPEAMMGRFNIDVRVNSEVISINTREKKVKVNSKEKGLY
                     EETYDYIIMSPGATPIKPPIKGINSSKIFTLRNIPDTDRIKDYVDNKDVKSAVVVGGG
                     YIGVEMAENLRERGINVVLVEAAPHILAPFDSDMVTFAEQELQDNGVGLILGDGVKSF
                     EENNNKIKLSLQSGTELNADMIILAIGVKPDTEFLKGSSIEIGPRGHIIVDKHMKTNV
                     EGIYAVGDAIEVVDYINENKTAIPLAGPANKQGRIAADNICELNSSYKGTQGTAIIKV
                     FGLTGASTGNNERTLSKFNIPYEVVYTHSQSHASYYPGGTPISLKLIFDTKGKILGAQ
                     VFGYDGVDKRIDDIAIVIRFGGTIYDLEELELAYAPPYSSAKDPVNMLGFVAENVLTG
                     KVETVLSKDIDNRDKDKVILLDVRDDIEIENGKIEGAIEIPINQLRNRLSEIPKDNEV
                     WIYCQIGLRGYIAARILMANGYKVKNLNGGYKTYIMNKFIPEKINKMPEEKMKGNNET
                     KEEVAETLELDACGLSCPGPLMKVNNTVSEMNEGETLKVKASDPGFYVDIQSWCERTN
                     NELLSVSKDKGIVKALIKKGKEKLQVDEKERKGKIKENDNKTLVVFSGDLDKAIASFV
                     IANGAVAMGKKVTMFFTFWGLNILRKPEKTKIQKAFMDKMFASMMPRGSKKLKLSKMN
                     MMGMGSKMIRKVMKNKNISSLEELIQSAIDSGINIVACQMSMDVMGIKEEELIDGVNI
                     GGVGYYLGEAEDANVNLFI"
     misc_feature    212035..213300
                     /locus_tag="CLC_0236"
                     /note="CoA-disulfide reductase; Region: CoA_CoA_reduc;
                     TIGR03385"
                     /db_xref="CDD:163244"
     misc_feature    <212173..212499
                     /locus_tag="CLC_0236"
                     /note="NAD(P)-binding Rossmann-like domain; Region:
                     NAD_binding_8; cl17500"
                     /db_xref="CDD:248054"
     misc_feature    212434..212679
                     /locus_tag="CLC_0236"
                     /note="Pyridine nucleotide-disulphide oxidoreductase;
                     Region: Pyr_redox; pfam00070"
                     /db_xref="CDD:215691"
     misc_feature    212995..213276
                     /locus_tag="CLC_0236"
                     /note="Pyridine nucleotide-disulphide oxidoreductase,
                     dimerisation domain; Region: Pyr_redox_dim; pfam02852"
                     /db_xref="CDD:217252"
     misc_feature    213352..213603
                     /locus_tag="CLC_0236"
                     /note="Member of the Rhodanese Homology Domain
                     superfamily. Included in this CD are the Lactococcus
                     lactis NADH oxidase, Bacillus cereus NADH dehydrogenase,
                     and Bacteroides thetaiotaomicron pyridine
                     nucleotide-disulphide oxidoreductase, and similar...;
                     Region: RHOD_Pyr_redox; cd01524"
                     /db_xref="CDD:238782"
     misc_feature    213511..213513
                     /locus_tag="CLC_0236"
                     /note="active site residue [active]"
                     /db_xref="CDD:238782"
     misc_feature    213700..213906
                     /locus_tag="CLC_0236"
                     /note="SirA, YedF, and YeeD. Two-layered alpha/beta
                     sandwich domain.  SirA (also known as UvrY,  and YhhP)
                     belongs to a family of bacterial two-component response
                     regulators that controls secondary metabolism and
                     virulence. The other member of this...; Region:
                     SirA_YedF_YeeD; cl00436"
                     /db_xref="CDD:241861"
     misc_feature    order(213703..213708,213715..213717,213724..213735,
                     213739..213741)
                     /locus_tag="CLC_0236"
                     /note="CPxP  motif; other site"
                     /db_xref="CDD:238180"
     misc_feature    213958..214425
                     /locus_tag="CLC_0236"
                     /note="DsrE/DsrF/DrsH-like family; Region: DrsE_2;
                     pfam13686"
                     /db_xref="CDD:205862"
     gene            complement(214459..215313)
                     /locus_tag="CLC_0237"
                     /db_xref="GeneID:5398441"
                     /db_xref="Pathema:CLC_0237"
     CDS             complement(214459..215313)
                     /locus_tag="CLC_0237"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386140.1"
                     /db_xref="GI:153935874"
                     /db_xref="GeneID:5398441"
                     /db_xref="Pathema:CLC_0237"
                     /translation="MNYNESYENNSKDWPIYKENSAEWLKEKSLLYDREVTCPVCGNI
                     FKAKSIKTSSYRILKKDSDLFIRYSVINPYFYDVWVCNECGYAAMKRDFNKIRSFQIN
                     SVKEKITPTWIPKVYPEVYNIDIAIERFKLSLLNYVVIESPYSKKGFNSLKLAWMYRL
                     KDDYEKEKLFLNEALESLKEAYSSEDFPIYGMDRYTAMYLIAELMRKAGNTEESLRWF
                     SNVITCPGISSRLKNLARDQKDLIKEEINEIDFTPIDPTPMEIDEIDNTKPQKGFLSR
                     FLNKIKIL"
     misc_feature    complement(214477..215229)
                     /locus_tag="CLC_0237"
                     /note="Uncharacterized protein conserved in bacteria
                     [Function unknown]; Region: COG1655"
                     /db_xref="CDD:224569"
     misc_feature    complement(214588..215223)
                     /locus_tag="CLC_0237"
                     /note="Uncharacterized protein conserved in bacteria
                     (DUF2225); Region: DUF2225; pfam09986"
                     /db_xref="CDD:150637"
     gene            215470..216258
                     /locus_tag="CLC_0238"
                     /db_xref="GeneID:5401476"
                     /db_xref="Pathema:CLC_0238"
     CDS             215470..216258
                     /locus_tag="CLC_0238"
                     /note="identified by match to protein family HMM PF04607"
                     /codon_start=1
                     /transl_table=11
                     /product="RelA/SpoT domain-containing protein"
                     /protein_id="YP_001386141.1"
                     /db_xref="GI:153937615"
                     /db_xref="GeneID:5401476"
                     /db_xref="Pathema:CLC_0238"
                     /translation="MALGEWKTFLIPYKQAVEELKVKFRSIRKEYREKNEYSPIEFVT
                     GRVKEISSILEKANKFNIPLDRISYEMEDIAGIRIMCQFTSDIEKVVELVRQRKDMQI
                     IYEKDYITNVKNSGYRSYHMIIKYPVSMAEGQKEILAEFQIRTLAMNFWATIEHSLNY
                     KYKHQIPKDIKLKLKSAADAASNLDKLMMEIKDEIKDAQKLFEVKSSLVSYIMDNILT
                     LQSMGKIIDSNRYQEQLNKLIEEGEVFELNSLLKSTEKTIEMYK"
     misc_feature    215542..215931
                     /locus_tag="CLC_0238"
                     /note="Nucleotidyltransferase (NT) domain of RelA- and
                     SpoT-like ppGpp synthetases and hydrolases; Region:
                     NT_Rel-Spo_like; cd05399"
                     /db_xref="CDD:143389"
     misc_feature    order(215605..215607,215611..215613,215686..215691,
                     215701..215703,215785..215787,215791..215793,
                     215806..215808,215812..215814,215818..215820,
                     215830..215832,215887..215889,215893..215895,
                     215899..215901,215923..215928)
                     /locus_tag="CLC_0238"
                     /note="synthetase active site [active]"
                     /db_xref="CDD:143389"
     misc_feature    order(215605..215607,215785..215787,215791..215793,
                     215806..215808,215812..215814,215818..215820,
                     215830..215832,215887..215889,215893..215895,
                     215923..215925)
                     /locus_tag="CLC_0238"
                     /note="NTP binding site [chemical binding]; other site"
                     /db_xref="CDD:143389"
     misc_feature    order(215686..215688,215887..215889)
                     /locus_tag="CLC_0238"
                     /note="metal binding site [ion binding]; metal-binding
                     site"
                     /db_xref="CDD:143389"
     gene            complement(216561..219002)
                     /gene="leuS"
                     /locus_tag="CLC_0240"
                     /db_xref="GeneID:5400866"
                     /db_xref="Pathema:CLC_0240"
     CDS             complement(216561..219002)
                     /gene="leuS"
                     /locus_tag="CLC_0240"
                     /EC_number="6.1.1.4"
                     /note="leucine--tRNA ligase; LeuRS; class-I aminoacyl-tRNA
                     synthetase; charges leucine by linking carboxyl group to
                     alpha-phosphate of ATP and then transfers
                     aminoacyl-adenylate to its tRNA; due to the large number
                     of codons that tRNA(Leu) recognizes, the leucyl-tRNA
                     synthetase does not recognize the anticodon loop of the
                     tRNA, but instead recognition is dependent on a conserved
                     discriminator base A37 and a long arm; an editing domain
                     hydrolyzes misformed products; in Methanothermobacter
                     thermautotrophicus this enzyme associates with prolyl-tRNA
                     synthetase"
                     /codon_start=1
                     /transl_table=11
                     /product="leucyl-tRNA synthetase"
                     /protein_id="YP_001386143.1"
                     /db_xref="GI:153935447"
                     /db_xref="GeneID:5400866"
                     /db_xref="Pathema:CLC_0240"
                     /translation="MGNYSTKIDEKWQKKWEENSLYKFNNKNLDKKLYVLEMFSYPSG
                     SKLHAGHWFNYGPVDSWARFKRMQGYNVFQPMGFDAFGLPAENYAIKTGIHPKDSTFK
                     NIETMETQLKAMGAMFNWENEVITCSPDYYKWTQWLFLKLYEKGLAYKKKAPVNWCPS
                     CNTVLANEQVLDGKCERCDSNVDKKNLEQWFLKITDYADELLEKLDELDWPEKTKAMQ
                     KHWIGKSVGAEVTFNVADSDLSFNVFTTRVDTLFGVTYVVLAPENDLVDKLTTPENKA
                     EVESYKTQAKNQSDIERQSITREKTGVFSGSYAINPINGKKVPIWIGDYVLNTYGTGC
                     VMAVPAHDERDFAFATKYNLPIERVIEGGDSLPYTEYGGMVNSGEFDGLLGNEAKEAV
                     ISKLESMNLGRKKINYRLRDWLVSRQRYWGAPIPIIYCEKCGTVEVPIEQLPVELPYN
                     VEFSPDGKSPLGKCDDFINTTCPKCGGPAKREADTLDTFVCSSWYYLRYPDNNNEKDA
                     FNPELINKMLPVDKYVGGPEHACMHLLYARFITKALRDMGYLNFDEPFLSLTHQGLIL
                     GPDGLKMSKSKGNTISPDDYIKEFGADVFRMYLMFGFDYTEGGAWSDDAIKSIGKFVD
                     RVERILENAREEIKNSKDNKSTMDKDEKELNYVRHHSIKSITEDIDKMQFNTSIARLM
                     EFTNALSKYLGIDAIKNALFLRESIIDFITLLAPFAPHFAEEQWKLIGINSSIFNEKW
                     PEFDPKALIKDEVEIAVQVNGKIRAKINISTSSSEDEIKESALNNEDIKNSIGDKEIK
                     KVIVIKNRLVNIVAK"
     misc_feature    complement(216564..218984)
                     /gene="leuS"
                     /locus_tag="CLC_0240"
                     /note="leucyl-tRNA synthetase; Validated; Region: leuS;
                     PRK00390"
                     /db_xref="CDD:234743"
     misc_feature    complement(<218334..218909)
                     /gene="leuS"
                     /locus_tag="CLC_0240"
                     /note="catalytic core domain of leucyl-tRNA synthetases;
                     Region: LeuRS_core; cd00812"
                     /db_xref="CDD:173906"
     misc_feature    complement(218850..218861)
                     /gene="leuS"
                     /locus_tag="CLC_0240"
                     /note="HIGH motif; other site"
                     /db_xref="CDD:173906"
     misc_feature    complement(217812..218324)
                     /gene="leuS"
                     /locus_tag="CLC_0240"
                     /note="Leucyl-tRNA synthetase, Domain 2; Region:
                     tRNA-synt_1_2; pfam13603"
                     /db_xref="CDD:222257"
     misc_feature    complement(217170..>217838)
                     /gene="leuS"
                     /locus_tag="CLC_0240"
                     /note="nucleotidyl transferase superfamily; Region:
                     nt_trans; cl00015"
                     /db_xref="CDD:241550"
     misc_feature    complement(217272..217283)
                     /gene="leuS"
                     /locus_tag="CLC_0240"
                     /note="active site"
                     /db_xref="CDD:173912"
     misc_feature    complement(217272..217283)
                     /gene="leuS"
                     /locus_tag="CLC_0240"
                     /note="KMSKS motif; other site"
                     /db_xref="CDD:173912"
     misc_feature    complement(216816..217172)
                     /gene="leuS"
                     /locus_tag="CLC_0240"
                     /note="Anticodon-binding domain of bacterial and
                     eukaryotic mitochondrial leucyl tRNA synthetases; Region:
                     Anticodon_Ia_Leu_BEm; cd07958"
                     /db_xref="CDD:153412"
     misc_feature    complement(order(216924..216926,216936..216938,
                     216945..216947,216954..216959,216966..216968,
                     216978..216980,217128..217130,217140..217142,
                     217149..217154,217161..217163))
                     /gene="leuS"
                     /locus_tag="CLC_0240"
                     /note="tRNA binding surface [nucleotide binding]; other
                     site"
                     /db_xref="CDD:153412"
     gene            complement(219379..219783)
                     /locus_tag="CLC_0241"
                     /db_xref="GeneID:5398800"
                     /db_xref="Pathema:CLC_0241"
     CDS             complement(219379..219783)
                     /locus_tag="CLC_0241"
                     /note="identified by match to protein family HMM PF00581"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386144.1"
                     /db_xref="GI:153934709"
                     /db_xref="GeneID:5398800"
                     /db_xref="Pathema:CLC_0241"
                     /translation="MNSKIREKFLFYSLFVVLLTSILLIPIYSAKAYKNISPEEIKHI
                     ISTPYSTAIIIDVRTPKEFSNGHIPKSLNIPLDKFKDTMLSKNIDKNTKIIIYSNTSV
                     RAKNASNLLNSLGFNNVYVLDHLNSWSYPLEY"
     misc_feature    complement(219400..219630)
                     /locus_tag="CLC_0241"
                     /note="Rhodanese Homology Domain (RHOD); an alpha beta
                     fold domain found duplicated in the rhodanese protein. The
                     cysteine containing enzymatically active version of the
                     domain is also found in the Cdc25 class of protein
                     phosphatases and a variety of proteins...; Region: RHOD;
                     cd00158"
                     /db_xref="CDD:238089"
     misc_feature    complement(219490..219492)
                     /locus_tag="CLC_0241"
                     /note="active site residue [active]"
                     /db_xref="CDD:238089"
     gene            complement(219969..220043)
                     /locus_tag="CLC_0243"
                     /db_xref="GeneID:5401623"
     tRNA            complement(219969..220043)
                     /locus_tag="CLC_0243"
                     /product="tRNA-Gln"
                     /db_xref="GeneID:5401623"
     gene            complement(220097..220621)
                     /locus_tag="CLC_0244"
                     /db_xref="GeneID:5401429"
                     /db_xref="Pathema:CLC_0244"
     CDS             complement(220097..220621)
                     /locus_tag="CLC_0244"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386145.1"
                     /db_xref="GI:153937397"
                     /db_xref="GeneID:5401429"
                     /db_xref="Pathema:CLC_0244"
                     /translation="MKTTPLKSSNIAKGGVFTAISFLLIYLSTILPVNKLSLLATASA
                     IIPIAIISTNAKNGFLVYLSTSILCSIVVGISRISVIFYIVFFGLYGIIKYYIERLNK
                     LYIEIILKFAFFNICLIVLLYIYKLFFQGITIINKYIYMYFIVAQIAFIVFDYVLTLF
                     IFYINKHFIKNIKP"
     gene            complement(220646..221245)
                     /locus_tag="CLC_0245"
                     /db_xref="GeneID:5400930"
                     /db_xref="Pathema:CLC_0245"
     CDS             complement(220646..221245)
                     /locus_tag="CLC_0245"
                     /note="identified by match to protein family HMM PF00226;
                     match to protein family HMM PF07719"
                     /codon_start=1
                     /transl_table=11
                     /product="DnaJ family molecular chaperone"
                     /protein_id="YP_001386146.1"
                     /db_xref="GI:153937577"
                     /db_xref="GeneID:5400930"
                     /db_xref="Pathema:CLC_0245"
                     /translation="MNPYEILGINKNASKEEIQQAYRKLAKKYHPDQYGNNPLRDLAE
                     QKMREINEAYDYLMKNNNSQSYNSNNYNGSYNSHSSNDYASIRADIDRGNISSAEQKL
                     NSINVRNAEWYYLMGRVNYSKGWYDVAYNYFNNAYSLDPSNFEYRDALDKMSRNNSSY
                     RKPYYSERRSDPDMCKICGTLYCIDCCCECCGGDFISCC"
     misc_feature    complement(221075..221242)
                     /locus_tag="CLC_0245"
                     /note="DnaJ domain or J-domain.  DnaJ/Hsp40 (heat shock
                     protein 40) proteins are highly conserved and play crucial
                     roles in protein translation, folding, unfolding,
                     translocation, and degradation. They act primarily by
                     stimulating the ATPase activity of Hsp70s; Region: DnaJ;
                     cd06257"
                     /db_xref="CDD:99751"
     misc_feature    complement(order(221090..221095,221102..221107,
                     221114..221116,221150..221158))
                     /locus_tag="CLC_0245"
                     /note="HSP70 interaction site [polypeptide binding]; other
                     site"
                     /db_xref="CDD:99751"
     gene            complement(221232..222106)
                     /locus_tag="CLC_0246"
                     /note="conserved hypothetical protein, authentic
                     frameshift; this gene contains a frame shift which is not
                     the result of sequencing error; identified by similarity
                     to GB:AAK78626.1"
                     /pseudo
                     /db_xref="GeneID:5401431"
     gene            complement(222110..222649)
                     /locus_tag="CLC_0247"
                     /db_xref="GeneID:5399810"
                     /db_xref="Pathema:CLC_0247"
     CDS             complement(222110..222649)
                     /locus_tag="CLC_0247"
                     /note="identified by match to protein family HMM PF01928"
                     /codon_start=1
                     /transl_table=11
                     /product="adenylyl cyclase CyaB"
                     /protein_id="YP_001386147.1"
                     /db_xref="GI:153935232"
                     /db_xref="GeneID:5399810"
                     /db_xref="Pathema:CLC_0247"
                     /translation="MKEIETRIIKIDIEEIRKKLLDLGAIKVKEESQINNIYDFSDKK
                     LLKNKGYARIRYIKDVIKNEEHYYMTVKKLISQEKYKVMEENETEILDFKEGEHIFKA
                     LGLELIESISKFRESYKYKETLVEIDINDKSFCPFPYIELESNNEEELEELVELLGYS
                     MNDTTSKTIYEILNEEKVK"
     misc_feature    complement(<222254..222592)
                     /locus_tag="CLC_0247"
                     /note="Adenylyl cyclase (AC) class IV-like, a subgroup of
                     the CYTH-like superfamily; Region: CYTH-like_AC_IV-like;
                     cd07890"
                     /db_xref="CDD:143628"
     misc_feature    complement(order(222266..222268,222305..222307,
                     222311..222313,222395..222397,222434..222436,
                     222479..222481,222485..222487,222491..222493,
                     222536..222544,222548..222550))
                     /locus_tag="CLC_0247"
                     /note="putative active site [active]"
                     /db_xref="CDD:143628"
     misc_feature    complement(order(222305..222307,222395..222397,
                     222434..222436,222479..222481,222491..222493,
                     222539..222541))
                     /locus_tag="CLC_0247"
                     /note="putative triphosphate binding site [ion binding];
                     other site"
                     /db_xref="CDD:143628"
     misc_feature    complement(order(222341..222346,222350..222358,
                     222362..222367,222374..222376,222380..222394,
                     222398..222400,222428..222433,222437..222439,
                     222443..222445,222494..222496,222500..222502))
                     /locus_tag="CLC_0247"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:143628"
     gene            222956..223993
                     /locus_tag="CLC_0248"
                     /db_xref="GeneID:5399570"
                     /db_xref="Pathema:CLC_0248"
     CDS             222956..223993
                     /locus_tag="CLC_0248"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386148.1"
                     /db_xref="GI:153935961"
                     /db_xref="GeneID:5399570"
                     /db_xref="Pathema:CLC_0248"
                     /translation="MEYIKEVNINEAIIHILDNNSEEPILNEYKLRLDDEIYKFILKH
                     VDRCLKDEELKYAIFNEERNIVKELSQEYLNGQNDLLDVSKELARQLFILMKGNDNIS
                     SCDLMIVSISTEYGPMLAILKMDYVKNYIHVVDMVEDKIDIDIVPEFTGLPASAQKIQ
                     KCAFIKPIREDQEFNLMVIDKQKKSKDSEEYGSNYFISKYLGCKIVENERDATKNFVK
                     ATEKWAKSNLNENADTSEKIIRTVNKLLKEEDTINVKEVSNDIFGENPDIKLNYEGFI
                     SEQGVKDKVSIDKEWVDKKFKRIRVKIDKDIDLYIDEESYHDESRFEVKRVGDGSVNI
                     MIKNVYNYMQK"
     misc_feature    222992..223975
                     /locus_tag="CLC_0248"
                     /note="37-kD nucleoid-associated bacterial protein;
                     Region: NA37; pfam04245"
                     /db_xref="CDD:217985"
     gene            complement(224266..225192)
                     /gene="fba"
                     /locus_tag="CLC_0249"
                     /db_xref="GeneID:5399835"
                     /db_xref="Pathema:CLC_0249"
     CDS             complement(224266..225192)
                     /gene="fba"
                     /locus_tag="CLC_0249"
                     /EC_number="4.1.2.13"
                     /note="identified by match to protein family HMM PF01116;
                     match to protein family HMM TIGR00167; match to protein
                     family HMM TIGR01859"
                     /codon_start=1
                     /transl_table=11
                     /product="fructose-1,6-bisphosphate aldolase"
                     /protein_id="YP_001386149.1"
                     /db_xref="GI:153937182"
                     /db_xref="GeneID:5399835"
                     /db_xref="Pathema:CLC_0249"
                     /translation="MALVTTKEMFKKAYEGKYAIGAFNINNMEILQGVVNSAKAANSA
                     VILQVSAGALKYAGPKYLKAMVDAAIADTGIDVALHLDHGASLDVVKLAVESGFTSVM
                     FDGSHYDYEENVAKTKEVVEYAHSHGVVVEAELGVLAGVEDDVQSDVHIYTDPEQAVD
                     FVNRTGVDSLAIAIGTSHGAYKFAGEAQLRFDILEEIQSKLPGYPIVLHGASSVDPES
                     VDTCNKYGGEIKGAKGVPADMLRKASSMAVCKINMDTDLRLAMTAGIRKVLSEDPKQF
                     DPRKYLGEGRSRIEKIVEDKIKNVLGSADSLK"
     misc_feature    complement(224281..225177)
                     /gene="fba"
                     /locus_tag="CLC_0249"
                     /note="Tagatose-1,6-bisphosphate (TBP) aldolase and
                     related Type B Class II aldolases. TBP aldolase is a
                     tetrameric class II aldolase that catalyzes the reversible
                     condensation of dihydroxyacetone phosphate with
                     glyceraldehyde 3-phsophate to produce tagatose 1; Region:
                     TBP_aldolase_IIB; cd00947"
                     /db_xref="CDD:238477"
     misc_feature    complement(224272..225171)
                     /gene="fba"
                     /locus_tag="CLC_0249"
                     /note="fructose-bisphosphate aldolase; Provisional;
                     Region: PRK09197"
                     /db_xref="CDD:236406"
     misc_feature    complement(order(224386..224388,224395..224397,
                     224407..224409,224416..224421,224425..224430,
                     224767..224769,224986..224991,224998..225000,
                     225010..225012,225022..225030,225037..225039,
                     225097..225099,225106..225114))
                     /gene="fba"
                     /locus_tag="CLC_0249"
                     /note="intersubunit interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238477"
     misc_feature    complement(order(224428..224433,224437..224439,
                     224557..224559,224563..224568,224650..224652,
                     224656..224664,224944..224949))
                     /gene="fba"
                     /locus_tag="CLC_0249"
                     /note="active site"
                     /db_xref="CDD:238477"
     misc_feature    complement(order(224566..224568,224659..224661,
                     224944..224946))
                     /gene="fba"
                     /locus_tag="CLC_0249"
                     /note="zinc binding site [ion binding]; other site"
                     /db_xref="CDD:238477"
     misc_feature    complement(order(224557..224559,224563..224565,
                     224650..224652,224656..224658,224662..224664))
                     /gene="fba"
                     /locus_tag="CLC_0249"
                     /note="Na+ binding site [ion binding]; other site"
                     /db_xref="CDD:238477"
     gene            complement(225418..225702)
                     /locus_tag="CLC_0250"
                     /db_xref="GeneID:5398486"
                     /db_xref="Pathema:CLC_0250"
     CDS             complement(225418..225702)
                     /locus_tag="CLC_0250"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386150.1"
                     /db_xref="GI:153936874"
                     /db_xref="GeneID:5398486"
                     /db_xref="Pathema:CLC_0250"
                     /translation="MNQCNELEELVSSQSWEKAYGKSLELFNDWQDNNFVISMVTNHS
                     EIDNINIELWKLTQYVKCESEDESLASIHAVKFLLEHIMQMEKINIKNIV"
     misc_feature    complement(225424..>225702)
                     /locus_tag="CLC_0250"
                     /note="Domain of unknown function (DUF4363); Region:
                     DUF4363; pfam14276"
                     /db_xref="CDD:206444"
     gene            complement(225819..226487)
                     /locus_tag="CLC_0251"
                     /db_xref="GeneID:5399019"
                     /db_xref="Pathema:CLC_0251"
     CDS             complement(225819..226487)
                     /locus_tag="CLC_0251"
                     /note="identified by match to protein family HMM PF04239"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386151.1"
                     /db_xref="GI:153936318"
                     /db_xref="GeneID:5399019"
                     /db_xref="Pathema:CLC_0251"
                     /translation="MFIVLIRTIILYLLVILSMRLMGKKQIGELEPFELAITIMISEL
                     ASLPMQDSRIPLLHGIVPILTLLIVQTMLSIVQLKSEKLRSIITGEPSLLIENGKINF
                     KELKNQRFSINDMMEELRLQGYYDLQSVEYAILETSGQLSIIPKTEESPVTKKDLSLQ
                     TTQERLPVTLILDGKINRKNLKLIKKDEQWLKNKLEKYNISSYDELLIAVLNSKGNLY
                     YQKK"
     misc_feature    complement(225822..226487)
                     /locus_tag="CLC_0251"
                     /note="Predicted membrane protein [Function unknown];
                     Region: COG2323"
                     /db_xref="CDD:225205"
     gene            226612..228270
                     /locus_tag="CLC_0252"
                     /db_xref="GeneID:5399591"
                     /db_xref="Pathema:CLC_0252"
     CDS             226612..228270
                     /locus_tag="CLC_0252"
                     /note="identified by match to protein family HMM PF00485"
                     /codon_start=1
                     /transl_table=11
                     /product="threonyl-tRNA synthetase/uridine kinase"
                     /protein_id="YP_001386152.1"
                     /db_xref="GI:153937058"
                     /db_xref="GeneID:5399591"
                     /db_xref="Pathema:CLC_0252"
                     /translation="MEGLKLYMPNGSNILASGDKTLYDVVKENKLQDNIPIVLGKIDE
                     EYYELTSTVKKEGVFIPVDITDSMGLKTYVRTLQFIFIKAVLDLYPESTVVIEHSLGK
                     GLYGEIHKTLSLNENDILKIKNRMNEIINKDIKIKKISVKKERAIEIFNEYKMKDKVR
                     LLNHIPHEEVKLYELDERYDYFYGPMAYSTGAIKNFDIMYYDPGFILRYPREKDPFNI
                     PEFVEYKKLTKIFRETEKWAKILDVGDVGALNDKVVYGEIKDIIRVSEALHEKKIANI
                     ADMIYDKEKIKMVLISGPSSSGKTTFANRLGIQLRVNALIPVPISLDNYFVNREDTPK
                     DENGDYDFESIDALDIDLFNEDLKHILNGEEVPIPTFNFKKGKREYDGKKIKLPKNGI
                     LIVEGIHGLNPILTREIPDKNKFKIYISALTQLNIDNHNRVSTTDVRIIRRLVRDYLS
                     RGYKGEETLKMWPSIKRGEDRNIFVFQENADVMFNSTIVYELCILKKYALAELNKIDK
                     NSTVHYEATRLKSFLNFFKEVDMNLVPSNSILREFIGGSCFYEY"
     misc_feature    227458..228156
                     /locus_tag="CLC_0252"
                     /note="Uridine kinase [Nucleotide transport and
                     metabolism]; Region: Udk; COG0572"
                     /db_xref="CDD:223645"
     misc_feature    227476..228069
                     /locus_tag="CLC_0252"
                     /note="Uridine monophosphate kinase_like (UMPK_like) is a
                     family of proteins highly similar to the uridine
                     monophosphate kinase (UMPK, EC 2.7.1.48), also known as
                     uridine kinase or uridine-cytidine kinase (UCK); Region:
                     UMPK_like; cd02028"
                     /db_xref="CDD:238986"
     misc_feature    order(227488..227490,227503..227514)
                     /locus_tag="CLC_0252"
                     /note="active site"
                     /db_xref="CDD:238986"
     gene            228408..228539
                     /locus_tag="CLC_0253"
                     /db_xref="GeneID:5400838"
                     /db_xref="Pathema:CLC_0253"
     CDS             228408..228539
                     /locus_tag="CLC_0253"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386153.1"
                     /db_xref="GI:153934840"
                     /db_xref="GeneID:5400838"
                     /db_xref="Pathema:CLC_0253"
                     /translation="MELLYPDEYFLELLEENLYNFNKEGYDDLTVNIELDPSVDELD"
     gene            complement(228640..229161)
                     /gene="pssA"
                     /locus_tag="CLC_0254"
                     /db_xref="GeneID:5398574"
                     /db_xref="Pathema:CLC_0254"
     CDS             complement(228640..229161)
                     /gene="pssA"
                     /locus_tag="CLC_0254"
                     /EC_number="2.7.8.8"
                     /note="identified by match to protein family HMM PF01066;
                     match to protein family HMM TIGR00473"
                     /codon_start=1
                     /transl_table=11
                     /product="CDP-diacylglycerol--serine
                     O-phosphatidyltransferase"
                     /protein_id="YP_001386154.1"
                     /db_xref="GI:153935636"
                     /db_xref="GeneID:5398574"
                     /db_xref="Pathema:CLC_0254"
                     /translation="MAKIAKSAVPNAFTLGNLGCGVMSLMMTFQQNYKWAALFILIAG
                     LMDRYDGRVARLLKVDSAIGKELDSLADLVSFGVAPSILTFHIYNFSYLGILGYLSVL
                     MFPIAGAYRLARYNITEFDGSFSGIPITLAGMFMAIYCLISSNKIGTSGLTIILMITL
                     SYLMVSNVKLKKF"
     misc_feature    complement(228907..229137)
                     /gene="pssA"
                     /locus_tag="CLC_0254"
                     /note="CDP-alcohol phosphatidyltransferase; Region:
                     CDP-OH_P_transf; pfam01066"
                     /db_xref="CDD:216278"
     misc_feature    complement(228655..229122)
                     /gene="pssA"
                     /locus_tag="CLC_0254"
                     /note="CDP-diacylglycerol--serine
                     O-phosphatidyltransferase; Region: pssA; TIGR00473"
                     /db_xref="CDD:232991"
     gene            229348..229764
                     /locus_tag="CLC_0255"
                     /db_xref="GeneID:5398752"
                     /db_xref="Pathema:CLC_0255"
     CDS             229348..229764
                     /locus_tag="CLC_0255"
                     /note="identified by match to protein family HMM PF00571"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386155.1"
                     /db_xref="GI:153936233"
                     /db_xref="GeneID:5398752"
                     /db_xref="Pathema:CLC_0255"
                     /translation="MKVMDVMTQNVATVNRNDSVEKAAQLMSEHNVGSIPICDNNKVV
                     GVITDRDIALRSVAKGSDNNIKVGDIMTSNPVVANKDMDIHDAARIMSERQIRRLPVE
                     DNQNIVGIVSLGDIAIEPKHENEAQKALSGISEQNN"
     misc_feature    229354..229695
                     /locus_tag="CLC_0255"
                     /note="FOG: CBS domain [General function prediction only];
                     Region: COG0517"
                     /db_xref="CDD:223591"
     misc_feature    229372..229704
                     /locus_tag="CLC_0255"
                     /note="The CBS domain, named after human CBS, is a small
                     domain originally identified in cystathionine
                     beta-synthase and is subsequently found in a wide range of
                     different proteins. CBS domains usually occur in tandem
                     repeats. They associate to form a so-called...; Region:
                     CBS_pair_9; cd04622"
                     /db_xref="CDD:239994"
     gene            229870..230754
                     /locus_tag="CLC_0256"
                     /db_xref="GeneID:5400520"
                     /db_xref="Pathema:CLC_0256"
     CDS             229870..230754
                     /locus_tag="CLC_0256"
                     /note="similar to YegS from E. coli"
                     /codon_start=1
                     /transl_table=11
                     /product="lipid kinase"
                     /protein_id="YP_001386156.1"
                     /db_xref="GI:153937206"
                     /db_xref="GeneID:5400520"
                     /db_xref="Pathema:CLC_0256"
                     /translation="MSKVKFIYNPYSGEKAIISQIDKVIRIHQKYGYEVVPYRISLEY
                     DLDDAFKSIDESYKYILVAGGDGTVDNVVNHLKKFSIDLPIAILPTGTANDFAKFIGM
                     PTNVGEACEQILKSSVKKIDLGKINDKYFINVASTGLFTDVSQKTDVNLKNTMGKLAY
                     YVKGLEQLPNFRRLKVNVRSEEVNFDGDMYLMMVFNGQTAGNLHMAYKAEVDDGMLDV
                     IIIKACAIKDMIGLFIKMIRGDHLEDVNALIYFKTNKLEIESNEEIVTDIDGERGPDF
                     PLQIECVKEGLDILGILD"
     misc_feature    229870..230751
                     /locus_tag="CLC_0256"
                     /note="putative lipid kinase; Reviewed; Region: PRK13059"
                     /db_xref="CDD:183858"
     misc_feature    229876..230250
                     /locus_tag="CLC_0256"
                     /note="Diacylglycerol kinase catalytic domain; Region:
                     DAGK_cat; pfam00781"
                     /db_xref="CDD:216116"
     gene            230828..231472
                     /locus_tag="CLC_0257"
                     /db_xref="GeneID:5398949"
                     /db_xref="Pathema:CLC_0257"
     CDS             230828..231472
                     /locus_tag="CLC_0257"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386157.1"
                     /db_xref="GI:153935045"
                     /db_xref="GeneID:5398949"
                     /db_xref="Pathema:CLC_0257"
                     /translation="MINLFIYISAILLMFIICMQGGKATFKAPRKIKIISIIIYFLMI
                     LKFISLTLLVFVNNIRNLYWLKWIYFLDFLAIPICILICFYICIKNNKFNLNYIIFII
                     VLITSILIFFMTKYSLKINMFNSQYYIMELLTPINMYVFFIFVNLIFLILCLIKHNNK
                     YINKNILYLMFFSTIVNISDIILSFLNINILPPNILGNIIWIYTLYTAVNKLIR"
     gene            complement(231564..233501)
                     /locus_tag="CLC_0258"
                     /db_xref="GeneID:5400404"
                     /db_xref="Pathema:CLC_0258"
     CDS             complement(231564..233501)
                     /locus_tag="CLC_0258"
                     /note="identified by match to protein family HMM PF04055;
                     match to protein family HMM PF08497"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386158.1"
                     /db_xref="GI:153935718"
                     /db_xref="GeneID:5400404"
                     /db_xref="Pathema:CLC_0258"
                     /translation="MSNIDFLPISKEDLKKRNIDVLDFIIVTGDAYVDHPSFGTAIIG
                     RVLEREGFTVGIIAQPNWNNIEDFKKLGKPKYGFLVNSGNIDSMVNHYTASKKKRHDD
                     FYSPGGKSGYRPDRAVIVYCNKIKEAFKDSPIIIGGIEASLRRFAHYDYWDNSVRRSI
                     LEDSSADLLIYGMGEKPIVQVSNLLRYGMKIDSIKNVRGTTYIEKDISSLKDYIEIPS
                     FEEVSTNKKSYAEAYKIQYYEQDSIRGKTLVQKHKERYVVQNPPQPPLSQEEMDEVYA
                     LPYARTYHPMYEAEGGIPAIKEVKFSITSHRGCYGSCSFCALTFHQGRVIQNRSQDSI
                     LKEANMMTNMKDFKGYIHDVGGPTANFRHRACKVQEKHGTCKNKQCVFPKACKNLIVD
                     HKEYLSLLRKIRKIPNVKKVFIRSGIRFDYLMYDKNDEFFKELCEHHISGQLKVAPEH
                     ISDKVLNLMGKPTRNVYDSFVKKYYDINKKIHKNQFLVPYLMSSHPGSDLKAAIELAQ
                     YIKKMGYTPEQVQDFYPTPGSLSTTMYYTGINPLTEEKVYIPKDQKEKRMQRALLQFS
                     IHDNYDLVKEALIKAHREDLIGNGPDCLIPYNKPYKKSHKKNNAKNNNNHYNKNNNYN
                     KNKDISKKNKKNSLSKHKKRK"
     misc_feature    complement(232596..233486)
                     /locus_tag="CLC_0258"
                     /note="Radical SAM N-terminal; Region: Radical_SAM_N;
                     pfam08497"
                     /db_xref="CDD:219869"
     misc_feature    complement(231714..233477)
                     /locus_tag="CLC_0258"
                     /note="hypothetical protein; Provisional; Region:
                     PRK00955"
                     /db_xref="CDD:234874"
     misc_feature    complement(<231714..231950)
                     /locus_tag="CLC_0258"
                     /note="Domain of unknown function (DUF3362); Region:
                     DUF3362; pfam11842"
                     /db_xref="CDD:221259"
     gene            234096..235361
                     /locus_tag="CLC_0259"
                     /db_xref="GeneID:5399289"
                     /db_xref="Pathema:CLC_0259"
     CDS             234096..235361
                     /locus_tag="CLC_0259"
                     /note="identified by match to protein family HMM PF00571;
                     match to protein family HMM PF03448; match to protein
                     family HMM PF05239"
                     /codon_start=1
                     /transl_table=11
                     /product="PRC-barrel domain/MgtE domain/CBS
                     domain-containing protein"
                     /protein_id="YP_001386159.1"
                     /db_xref="GI:153936983"
                     /db_xref="GeneID:5399289"
                     /db_xref="Pathema:CLC_0259"
                     /translation="MKKLQSFFLSKIINKKVYDEYGDYIGKLIDIYVTSEDDYPRAIA
                     YKIKKGREVVNYEFKNISFYDDEGKAIIKVIGTRDIILRKYSYLLSQHLLNKQIIDIN
                     GKKMVKVHDLRIGEIAGEYKVIAVDTGALALSRRVGMENLLRSIYKIFNKKIEDTLIM
                     WDSVESLEMVNNNLKLSVSYQKLSTLHPADLADIIEDMNDSYRKLVFESLDDDLAADT
                     FEEIDLEVKTEMLEEMTSSKKAEIIYNMSKDEAADILAQMKEEEVEQILSIMEERDAK
                     DIRKLMGYKEETAGSIMNKDFISFNVNITAEETIDLLREIKPKDEEAYYIYIVDEKEQ
                     LKGAISLTDLIICTPGAKLKDIMDKDIVKVKDTDHINEAVELAIKYDLLSIPVIEGEN
                     KLCGTISIDDIIEDVFAPMWRKKVKIVAV"
     misc_feature    234114..>234242
                     /locus_tag="CLC_0259"
                     /note="PRC-barrel domain; Region: PRC; pfam05239"
                     /db_xref="CDD:218519"
     misc_feature    234582..>235310
                     /locus_tag="CLC_0259"
                     /note="Mg/Co/Ni transporter MgtE (contains CBS domain)
                     [Inorganic ion transport and metabolism]; Region: MgtE;
                     COG2239"
                     /db_xref="CDD:225148"
     misc_feature    234651..234962
                     /locus_tag="CLC_0259"
                     /note="MgtE intracellular N domain; Region: MgtE_N;
                     smart00924"
                     /db_xref="CDD:214915"
     misc_feature    234990..235310
                     /locus_tag="CLC_0259"
                     /note="This cd contains two tandem repeats of the
                     cystathionine beta-synthase (CBS pair) domain in the
                     magnesium transporter, MgtE.  MgtE and its homologs are
                     found in eubacteria, archaebacteria, and eukaryota.
                     Members of this family transport Mg2+ or other...; Region:
                     CBS_pair_Mg_transporter; cd04606"
                     /db_xref="CDD:239979"
     gene            235591..236286
                     /gene="sleB"
                     /locus_tag="CLC_0260"
                     /db_xref="GeneID:5400663"
                     /db_xref="Pathema:CLC_0260"
     CDS             235591..236286
                     /gene="sleB"
                     /locus_tag="CLC_0260"
                     /note="identified by match to protein family HMM PF01471;
                     match to protein family HMM PF07486; match to protein
                     family HMM TIGR02869"
                     /codon_start=1
                     /transl_table=11
                     /product="spore-cortex-lytic enzyme"
                     /protein_id="YP_001386160.1"
                     /db_xref="GI:153935278"
                     /db_xref="GeneID:5400663"
                     /db_xref="Pathema:CLC_0260"
                     /translation="MRKNIYLKRAIIYVLAIMLAYGSTTLYILPYTNATKAVAYYYGH
                     RGDIISQVQRKLKAWGYYNGGVDGIFGHQTYTAVRYFQSKNGLTVDGIIGDKTLVALG
                     INTGSSGSSSSSNNQDVMLLARLINGEARGEPYEGQVAVGAVVLNRTRDSKFPNTIAG
                     VIYEPLAFTAIADGQINAQMQQTSINAARDALNGWDPSDGATYYFNPATATSSWIWSR
                     PLIKVIGKHRFCR"
     misc_feature    235693..236283
                     /gene="sleB"
                     /locus_tag="CLC_0260"
                     /note="spore cortex-lytic enzyme; Region: spore_SleB;
                     TIGR02869"
                     /db_xref="CDD:213747"
     misc_feature    235723..235893
                     /gene="sleB"
                     /locus_tag="CLC_0260"
                     /note="Putative peptidoglycan binding domain; Region:
                     PG_binding_1; pfam01471"
                     /db_xref="CDD:216518"
     misc_feature    235981..236283
                     /gene="sleB"
                     /locus_tag="CLC_0260"
                     /note="Cell Wall Hydrolase; Region: Hydrolase_2;
                     pfam07486"
                     /db_xref="CDD:219425"
     gene            236650..237564
                     /gene="cysK-1"
                     /locus_tag="CLC_0261"
                     /db_xref="GeneID:5401170"
                     /db_xref="Pathema:CLC_0261"
     CDS             236650..237564
                     /gene="cysK-1"
                     /locus_tag="CLC_0261"
                     /EC_number="2.5.1.47"
                     /note="identified by match to protein family HMM PF00291;
                     match to protein family HMM TIGR01136; match to protein
                     family HMM TIGR01139"
                     /codon_start=1
                     /transl_table=11
                     /product="cysteine synthase A"
                     /protein_id="YP_001386161.1"
                     /db_xref="GI:153937069"
                     /db_xref="GeneID:5401170"
                     /db_xref="Pathema:CLC_0261"
                     /translation="MLYGNSIDLIGNTPMFKLNNMREENMADVYVKLEKFNPGGSIKD
                     RAALGMIEEAEKMGKIKPGDIIVEPTSGNTGIGLAMVGRLKGYKVIIVMPDSMSIERR
                     NMIKAYGAELVLTEGNKGMTGAIEKAEELARDKKGYFIPQQFSNRANSKKHYETTAVE
                     ILKDVDDLDAFVASVGTGGTIAGIGRRLKEFNKNIKVVAVEPYNSPVISGGKAAPHKI
                     QGIGAGFIPDVYEKDVVDDVMTITDEESYEYARRFGAEEGILVGISSGANIAAAIKIA
                     KKLGKGKKVVTVAPDGGEKYISTGLYDK"
     misc_feature    236653..237546
                     /gene="cysK-1"
                     /locus_tag="CLC_0261"
                     /note="Cysteine synthase [Amino acid transport and
                     metabolism]; Region: CysK; COG0031"
                     /db_xref="CDD:223110"
     misc_feature    236680..237543
                     /gene="cysK-1"
                     /locus_tag="CLC_0261"
                     /note="CBS_like: This subgroup includes Cystathionine
                     beta-synthase (CBS) and Cysteine synthase. CBS is a unique
                     heme-containing enzyme that catalyzes a pyridoxal
                     5'-phosphate (PLP)-dependent condensation of serine and
                     homocysteine to give cystathionine; Region: CBS_like;
                     cd01561"
                     /db_xref="CDD:107204"
     misc_feature    order(236692..236700,236737..236739,236755..236757,
                     236761..236763,236887..236889,236896..236898,
                     236944..236949,236956..236961,236968..236973,
                     237136..237141,237409..237417,237421..237429,
                     237499..237501,237529..237531,237538..237540)
                     /gene="cysK-1"
                     /locus_tag="CLC_0261"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:107204"
     misc_feature    order(236776..236778,236866..236868,237172..237189,
                     237307..237309,237439..237441,237517..237522)
                     /gene="cysK-1"
                     /locus_tag="CLC_0261"
                     /note="pyridoxal 5'-phosphate binding site [chemical
                     binding]; other site"
                     /db_xref="CDD:107204"
     misc_feature    236776..236778
                     /gene="cysK-1"
                     /locus_tag="CLC_0261"
                     /note="catalytic residue [active]"
                     /db_xref="CDD:107204"
     gene            237579..238175
                     /gene="cysE"
                     /locus_tag="CLC_0262"
                     /db_xref="GeneID:5399302"
                     /db_xref="Pathema:CLC_0262"
     CDS             237579..238175
                     /gene="cysE"
                     /locus_tag="CLC_0262"
                     /EC_number="2.3.1.30"
                     /note="identified by match to protein family HMM PF00132;
                     match to protein family HMM TIGR01172"
                     /codon_start=1
                     /transl_table=11
                     /product="serine O-acetyltransferase"
                     /protein_id="YP_001386162.1"
                     /db_xref="GI:153936522"
                     /db_xref="GeneID:5399302"
                     /db_xref="Pathema:CLC_0262"
                     /translation="MKNPFKVLIYDLKNAKEKDPAARNILEVFILYPFIHALIGYRIA
                     HLFYKAHLFFLARLISQISRFFTGIEIHPGATIGKGLFIDHGMGVVIGETAEVGDNVT
                     LYHGVTLGGTGKDKGKRHPTVGNNVIIGSGAKVLGPINIGDNVKIGANAVVLRHVPAN
                     ATAVGIPAKVVRYEKKSSVIEIRDYNGVKKVIYNDMII"
     misc_feature    237591..238118
                     /gene="cysE"
                     /locus_tag="CLC_0262"
                     /note="Serine acetyltransferase [Amino acid transport and
                     metabolism]; Region: CysE; COG1045"
                     /db_xref="CDD:223975"
     misc_feature    237777..238079
                     /gene="cysE"
                     /locus_tag="CLC_0262"
                     /note="Serine acetyltransferase (SAT): SAT catalyzes the
                     CoA-dependent acetylation of the side chain hydroxyl group
                     of L-serine to form O-acetylserine, as the first step of a
                     two-step biosynthetic pathway in bacteria and plants
                     leading to the formation of...; Region: LbH_SAT; cd03354"
                     /db_xref="CDD:100045"
     misc_feature    order(237780..237782,237786..237788,237831..237833,
                     237933..237935,238023..238025,238032..238034,
                     238038..238040)
                     /gene="cysE"
                     /locus_tag="CLC_0262"
                     /note="trimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:100045"
     misc_feature    order(237828..237833,237888..237893,237909..237914,
                     237933..237938,237969..237971,238014..238016,
                     238020..238025,238032..238034,238038..238040,
                     238062..238064,238077..238079)
                     /gene="cysE"
                     /locus_tag="CLC_0262"
                     /note="active site"
                     /db_xref="CDD:100045"
     misc_feature    order(237828..237833,237909..237911,237933..237938)
                     /gene="cysE"
                     /locus_tag="CLC_0262"
                     /note="substrate binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:100045"
     misc_feature    order(237888..237893,237909..237914,237969..237971,
                     238014..238016,238020..238025,238032..238034,
                     238038..238040,238062..238064,238077..238079)
                     /gene="cysE"
                     /locus_tag="CLC_0262"
                     /note="CoA binding site [chemical binding]; other site"
                     /db_xref="CDD:100045"
     gene            238197..239162
                     /locus_tag="CLC_0263"
                     /db_xref="GeneID:5400700"
                     /db_xref="Pathema:CLC_0263"
     CDS             238197..239162
                     /locus_tag="CLC_0263"
                     /note="identified by match to protein family HMM PF00037;
                     match to protein family HMM PF08331"
                     /codon_start=1
                     /transl_table=11
                     /product="(Fe-S)-binding protein"
                     /protein_id="YP_001386163.1"
                     /db_xref="GI:153935506"
                     /db_xref="GeneID:5400700"
                     /db_xref="Pathema:CLC_0263"
                     /translation="MNCKESVKEYCRNLGLNLIGFTKCRIFHELIPELTERKNENRQN
                     EFEGKDINKRVDPFQYMKEGKTIISIAFPYLFNLGHKHDVYFSKYTQGRDYHTVVNEY
                     LQKISNFIQSKGYRAEYFVDSNDLPERYIAYLCGIGFIGKNNMLITEKYGSYVFLGEI
                     ITDMEIDEDEPMECKCQECNICLRACPTNSLEHRDPNICLSYITQKKNIEDDWFNKLK
                     GRMFGCDTCQRVCPYNRNINTSNIEGFKTFDFMENLDLEELIYVNNKEFKEKYKLTSC
                     GWRGKSILQRNALINCITMNKDVDIQGKNIKSPYVLDYYHRLLKK"
     misc_feature    238206..239099
                     /locus_tag="CLC_0263"
                     /note="Uncharacterized Fe-S protein [Energy production and
                     conversion]; Region: COG1600"
                     /db_xref="CDD:224516"
     misc_feature    238356..238565
                     /locus_tag="CLC_0263"
                     /note="Domain of unknown function (DUF1730); Region:
                     DUF1730; pfam08331"
                     /db_xref="CDD:149403"
     gene            239310..240011
                     /locus_tag="CLC_0264"
                     /db_xref="GeneID:5401588"
                     /db_xref="Pathema:CLC_0264"
     CDS             239310..240011
                     /locus_tag="CLC_0264"
                     /note="identified by match to protein family HMM PF01553"
                     /codon_start=1
                     /transl_table=11
                     /product="1-acyl-sn-glycerol-3-phosphate acyltransferase"
                     /protein_id="YP_001386164.1"
                     /db_xref="GI:153935872"
                     /db_xref="GeneID:5401588"
                     /db_xref="Pathema:CLC_0264"
                     /translation="MISPTMIKIIGHMPKGFLKFLSRKVLNRYINKYANLKINGKENL
                     KNIDKPIIFISNHLSNSDALVINKALEDQDITFIAGVKLKDNSLTKLGLEITKTIPIK
                     PNTADKEAIYNIVKTLKSGNNILIFPEGTRSRTAKLMEPKKGVVLIQKLSKATIVPLG
                     ISGTEKLLPINDKDMALECFQSADVTINIGRALELPKKNKEESKHEYEDRLMDYFMSE
                     IAKLIPKEYRGIYNN"
     misc_feature    239328..>239828
                     /locus_tag="CLC_0264"
                     /note="1-acyl-sn-glycerol-3-phosphate acyltransferase
                     [Lipid metabolism]; Region: PlsC; COG0204"
                     /db_xref="CDD:223282"
     misc_feature    239412..239951
                     /locus_tag="CLC_0264"
                     /note="Lysophospholipid Acyltransferases (LPLATs) of
                     Glycerophospholipid Biosynthesis: AGPAT-like; Region:
                     LPLAT_AGPAT-like; cd07989"
                     /db_xref="CDD:153251"
     misc_feature    order(239478..239480,239487..239489,239493..239495,
                     239544..239555,239697..239705)
                     /locus_tag="CLC_0264"
                     /note="putative acyl-acceptor binding pocket; other site"
                     /db_xref="CDD:153251"
     gene            240104..240745
                     /gene="nth"
                     /locus_tag="CLC_0265"
                     /db_xref="GeneID:5400455"
                     /db_xref="Pathema:CLC_0265"
     CDS             240104..240745
                     /gene="nth"
                     /locus_tag="CLC_0265"
                     /EC_number="4.2.99.18"
                     /note="identified by match to protein family HMM PF00633;
                     match to protein family HMM PF00730; match to protein
                     family HMM TIGR01083"
                     /codon_start=1
                     /transl_table=11
                     /product="endonuclease III"
                     /protein_id="YP_001386165.1"
                     /db_xref="GI:153937471"
                     /db_xref="GeneID:5400455"
                     /db_xref="Pathema:CLC_0265"
                     /translation="MNNHEIKNVIDILVDTYPDANCELEHRNPFELLIATVLSAQTTD
                     KKVNEITKELFKEYSTPKDFLKLTREELEEKIKKIGLYRNKSKNILLLCKELEEKFGS
                     QVPNDFNDLTSLPGVGRKTANVVLANAFKVPTIAVDTHVFRVSNRIGLVDASNVLKTE
                     EQLQQAIPKELWILMHHVLIFHGRRCCVARKPKCEECTIKKYCKYYNEEIKPS"
     misc_feature    240104..240736
                     /gene="nth"
                     /locus_tag="CLC_0265"
                     /note="Predicted EndoIII-related endonuclease [DNA
                     replication, recombination, and repair]; Region: Nth;
                     COG0177"
                     /db_xref="CDD:223255"
     misc_feature    240191..240652
                     /gene="nth"
                     /locus_tag="CLC_0265"
                     /note="endonuclease III; includes endonuclease III
                     (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA
                     glycosidases (Alka-family) and other DNA glycosidases;
                     Region: ENDO3c; cd00056"
                     /db_xref="CDD:238013"
     misc_feature    order(240224..240232,240239..240241,240356..240358)
                     /gene="nth"
                     /locus_tag="CLC_0265"
                     /note="minor groove reading motif; other site"
                     /db_xref="CDD:238013"
     misc_feature    240443..240466
                     /gene="nth"
                     /locus_tag="CLC_0265"
                     /note="helix-hairpin-helix signature motif; other site"
                     /db_xref="CDD:238013"
     misc_feature    order(240473..240475,240629..240631,240641..240643)
                     /gene="nth"
                     /locus_tag="CLC_0265"
                     /note="substrate binding pocket [chemical binding]; other
                     site"
                     /db_xref="CDD:238013"
     misc_feature    240515..240517
                     /gene="nth"
                     /locus_tag="CLC_0265"
                     /note="active site"
                     /db_xref="CDD:238013"
     misc_feature    240662..240721
                     /gene="nth"
                     /locus_tag="CLC_0265"
                     /note="iron-sulpphur binding domain in DNA-(apurinic or
                     apyrimidinic site) lyase (subfamily of ENDO3); Region:
                     FES; smart00525"
                     /db_xref="CDD:197771"
     gene            241079..242251
                     /locus_tag="CLC_0266"
                     /db_xref="GeneID:5401239"
                     /db_xref="Pathema:CLC_0266"
     CDS             241079..242251
                     /locus_tag="CLC_0266"
                     /note="identified by match to protein family HMM PF00390;
                     match to protein family HMM PF03949"
                     /codon_start=1
                     /transl_table=11
                     /product="malic enzyme"
                     /protein_id="YP_001386166.1"
                     /db_xref="GI:153937822"
                     /db_xref="GeneID:5401239"
                     /db_xref="Pathema:CLC_0266"
                     /translation="MDIKEKSLMVHKKFKGKLSIEGKIQVKNKEDLSIAYTPGVAEPC
                     VKINEDKSLVYEYTMKGNTVAVVTNGTAVLGLGDIGPYAGLPVMEGKALLFKEFADID
                     SFPICIDSKDPEEIIKTVKLIAPGFGGINLEDIKAPECFYIEKKLKEELDIPVFHDDQ
                     HGTAIVVLAGIYNALRLVGKKLEEARIVINGAGSAGISICKLLLQAGVKNIIMCDKEG
                     SLVKGNSNLNEAQKLIVEVTNKENEKGTLKDIIKGKDVFIGVSAPNILTEEMVTSMNK
                     DSIVFAMANPTPEIMPDKAKKAGARVVATGRSDFPNQINNVLVFPGIFRGALDVRSKV
                     INEEMKLAASKAIASLVQDNELNEEYIIPGAFDKRVAEVVAEEVKKVALKMGLSKL"
     misc_feature    241079..242179
                     /locus_tag="CLC_0266"
                     /note="Malic enzyme [Energy production and conversion];
                     Region: SfcA; COG0281"
                     /db_xref="CDD:223358"
     misc_feature    241163..241522
                     /locus_tag="CLC_0266"
                     /note="Malic enzyme, N-terminal domain; Region: malic;
                     pfam00390"
                     /db_xref="CDD:215894"
     misc_feature    241556..242179
                     /locus_tag="CLC_0266"
                     /note="NAD(P) binding domain of malic enzyme (ME),
                     subgroup 2; Region: NAD_bind_2_malic_enz; cd05311"
                     /db_xref="CDD:133453"
     misc_feature    order(241652..241663,241721..241726,241856..241861,
                     241871..241873,241925..241933,241994..241996,
                     242018..242020,242024..242026)
                     /locus_tag="CLC_0266"
                     /note="putative NAD(P) binding site [chemical binding];
                     other site"
                     /db_xref="CDD:133453"
     gene            complement(242278..243507)
                     /locus_tag="CLC_0267"
                     /db_xref="GeneID:5399069"
                     /db_xref="Pathema:CLC_0267"
     CDS             complement(242278..243507)
                     /locus_tag="CLC_0267"
                     /note="identified by match to protein family HMM PF00994;
                     match to protein family HMM PF02464; match to protein
                     family HMM TIGR00177; match to protein family HMM
                     TIGR00199; match to protein family HMM TIGR00200"
                     /codon_start=1
                     /transl_table=11
                     /product="competence damage-inducible protein A"
                     /protein_id="YP_001386167.1"
                     /db_xref="GI:153936858"
                     /db_xref="GeneID:5399069"
                     /db_xref="Pathema:CLC_0267"
                     /translation="MKAEILCVGTELLLGDIVNTNAQYISKELANIGIEVYHHSVIGD
                     NENRLLKELERAFNYCDLVITTGGLGPTKDDLTKESVAKFFQEDLVLHEKSLKQIEKR
                     LLCFNKSMTESNKKQAYFPKNCEILENPNGTAPGFIIEKDNKIAIILPGPPYEMQPMF
                     ENKVIPYLEKLTSSTIKSKVLRITGIGESDVADLISDILENQTNPTVAPYAKQGETTL
                     RITAKANSEEKALNLIVPIEKKIRQILEDNIYGSGETSLEEVVANILVKRNLTIATAE
                     SCTGGLLAGKLINFPGISSVFLEGAITYSNESKINRLNVKKETLEKYTAVSKEVALEM
                     AEGIAKSAGTNIGISTTGVAGPGGGTYDKPIGLIYIGLYINGKTFVKELNYSGNRQFI
                     RNITVTRALDFLRRNLK"
     misc_feature    complement(242284..243507)
                     /locus_tag="CLC_0267"
                     /note="competence damage-inducible protein A; Provisional;
                     Region: PRK00549"
                     /db_xref="CDD:234789"
     misc_feature    complement(242995..243504)
                     /locus_tag="CLC_0267"
                     /note="Competence-damaged protein. CinA is the first gene
                     in the competence- inducible (cin) operon and is thought
                     to be specifically required at some stage in the process
                     of transformation. This domain is closely related to a
                     domain, found in a variety of...; Region: cinA; cd00885"
                     /db_xref="CDD:238450"
     misc_feature    complement(order(243034..243036,243043..243045,
                     243055..243060,243298..243306))
                     /locus_tag="CLC_0267"
                     /note="putative MPT binding site; other site"
                     /db_xref="CDD:238450"
     misc_feature    complement(242284..242748)
                     /locus_tag="CLC_0267"
                     /note="Competence-damaged protein; Region: CinA;
                     pfam02464"
                     /db_xref="CDD:145546"
     gene            complement(243533..244516)
                     /locus_tag="CLC_0268"
                     /db_xref="GeneID:5399794"
                     /db_xref="Pathema:CLC_0268"
     CDS             complement(243533..244516)
                     /locus_tag="CLC_0268"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386168.1"
                     /db_xref="GI:153935487"
                     /db_xref="GeneID:5399794"
                     /db_xref="Pathema:CLC_0268"
                     /translation="MYHTANIKNTKTKKYKILFLIPILIILIAINAIGFYNGNLIYVR
                     ACIEPTSRNSTNMYDTYKSTFDERRFNTLKKENITINSKYGYTLKGTYMENPHKTKNS
                     VVIVHGIRSSRWESMKYADLYLDKGFNILIYDSRYHGLSGGSDVTYGYYEKYDLDQCI
                     DWLERKNPGGIIGAHGESLGASTILLHSKMNLSKNRVKFYVADCPYSNLEELLKNKLN
                     EELHINNKIITDSLLFYSGACALLKSKFLYSSVSPIDSIKTVQTPIMFIHGDKDIYIP
                     KKMSEEMYNIKPGIKEIYIAPNAGHAQAYLYNKKEYRKNLYKFIDKYVKIN"
     misc_feature    complement(243611..244210)
                     /locus_tag="CLC_0268"
                     /note="Alpha/beta hydrolase family; Region: Abhydrolase_6;
                     pfam12697"
                     /db_xref="CDD:221720"
     misc_feature    complement(244034..>244210)
                     /locus_tag="CLC_0268"
                     /note="Putative lysophospholipase; Region: Hydrolase_4;
                     pfam12146"
                     /db_xref="CDD:221442"
     gene            complement(244626..245660)
                     /locus_tag="CLC_0269"
                     /db_xref="GeneID:5401556"
                     /db_xref="Pathema:CLC_0269"
     CDS             complement(244626..245660)
                     /locus_tag="CLC_0269"
                     /note="identified by match to protein family HMM PF05343"
                     /codon_start=1
                     /transl_table=11
                     /product="glutamyl aminopeptidase"
                     /protein_id="YP_001386169.1"
                     /db_xref="GI:153934586"
                     /db_xref="GeneID:5401556"
                     /db_xref="Pathema:CLC_0269"
                     /translation="MDYHKKLILNYLKNILTIPSPTGFTNHITNYLKKELDTIGIEYK
                     ITNKGSIIITLEGEDKSFERTLSAHMDTLGAMVKDINDNGTLSIVPLGGFMMNSIEGE
                     NCSIHTLNDEVYSGTIQTIKPSVHIHGKEAYDLKRSPENMEVILDEKIFSKKDIENLN
                     INIGDFISFDTRNIFTENGFIKSRHLDDKASLAILLYAIKYIHVNNLPLSCTTNFLFS
                     NYEEVGHGASYIPKNTKEFIAVDMGAPGENQNSSEYSVCICAKDSTGPYDLDFRKKLI
                     NICKTSNIPYKIDIYPSYGSDASAALKAGSDIKAALIGPGVYASHAYERTHMDSILAT
                     LDLIIKYCVS"
     misc_feature    complement(244629..245609)
                     /locus_tag="CLC_0269"
                     /note="Cellulase M and related proteins [Carbohydrate
                     transport and metabolism]; Region: FrvX; COG1363"
                     /db_xref="CDD:224282"
     misc_feature    complement(244638..245609)
                     /locus_tag="CLC_0269"
                     /note="M42 Peptidase, Endoglucanase-like subfamily;
                     Region: M42_glucanase_like; cd05657"
                     /db_xref="CDD:193533"
     misc_feature    complement(order(244686..244688,244695..244697,
                     244704..244709,244755..244757,244791..244793,
                     244833..244835,244881..244883,244899..244907,
                     244971..244976,244983..244985,245115..245117,
                     245121..245123,245133..245135,245139..245141,
                     245169..245174,245220..245228,245232..245234,
                     245310..245312,245316..245321,245352..245360,
                     245394..245396,245427..245435,245514..245516,
                     245523..245528,245562..245564,245574..245576,
                     245589..245597))
                     /locus_tag="CLC_0269"
                     /note="putative oligomer interface [polypeptide binding];
                     other site"
                     /db_xref="CDD:193533"
     misc_feature    complement(order(244698..244703,244776..244781,
                     244788..244790,244929..244940,244986..244988,
                     244995..245000,245100..245102,245454..245456))
                     /locus_tag="CLC_0269"
                     /note="putative active site [active]"
                     /db_xref="CDD:193533"
     misc_feature    complement(order(244698..244700,244938..244940,
                     244995..245000,245100..245102,245454..245456))
                     /locus_tag="CLC_0269"
                     /note="metal binding site [ion binding]; metal-binding
                     site"
                     /db_xref="CDD:193533"
     gene            245812..246948
                     /locus_tag="CLC_0270"
                     /db_xref="GeneID:5398953"
                     /db_xref="Pathema:CLC_0270"
     CDS             245812..246948
                     /locus_tag="CLC_0270"
                     /note="identified by match to protein family HMM PF04294"
                     /codon_start=1
                     /transl_table=11
                     /product="von Willebrand factor A"
                     /protein_id="YP_001386170.1"
                     /db_xref="GI:153935793"
                     /db_xref="GeneID:5398953"
                     /db_xref="Pathema:CLC_0270"
                     /translation="MVRSRKDRRKKESKPMKIALITLSVVILLTLSAFTTYQYNNIKY
                     YNNLIYPGVSVEGVDLSGKTKEEAKKIVQEKYWNKLLSKNINVKAKDKTYTLKYSDLK
                     PTSNLDNVLKDAEAYGKNLIIFKRYSLIKNKTSKNYSINFKYDKKVIESLMSKIEKDV
                     NISPIDASLASNGGGFSVISHKNGEKLDKDKLKKDLIPKINNDISSDITEKAVMKTVT
                     PRITEDKLQGVGRMIGSYSSHYGSISSSQRANNIVTSTSAINGKILMPGDVFSFNGVV
                     GERTAEKGYQAAPIIVGEKMENGLGGGVCQVSSTLFNAVAGSKLQSIERSHHTKPVHY
                     VPQGMDATVDYGNIDYKFRNNLQSPIYIEAYTSNGNVVFNLYSK"
     misc_feature    246115..>246363
                     /locus_tag="CLC_0270"
                     /note="Putative peptidoglycan binding domain; Region:
                     PG_binding_4; pfam12229"
                     /db_xref="CDD:204855"
     misc_feature    246550..246942
                     /locus_tag="CLC_0270"
                     /note="VanW like protein; Region: VanW; pfam04294"
                     /db_xref="CDD:146762"
     gene            247153..248505
                     /locus_tag="CLC_0271"
                     /db_xref="GeneID:5401315"
                     /db_xref="Pathema:CLC_0271"
     CDS             247153..248505
                     /locus_tag="CLC_0271"
                     /note="identified by match to protein family HMM PF04294;
                     match to protein family HMM PF07501"
                     /codon_start=1
                     /transl_table=11
                     /product="von Willebrand factor A"
                     /protein_id="YP_001386171.1"
                     /db_xref="GI:153935023"
                     /db_xref="GeneID:5401315"
                     /db_xref="Pathema:CLC_0271"
                     /translation="MKNRKAKRILIFIFLLMSILFGVFYYIYKEVSGFDSVIYPGVFI
                     EGIDLTAKTKNEAKNIIESKYSKVIVRKNITISWNDKKYNLSYAKLNPRYNIQETIDN
                     AYGYGKNLSIFSKYKIIKSKNIQNYLLKFSYDKKAMDGFIDSIEKDINKEAEDAKINV
                     NKGSISIVQDKKGFKLEKDKLKKILYSKMDGKNLKDINEKAPVKTQEAKIKKKQLETV
                     NSNISSYTTNYGSISSPQRANNIVISTKAINGTLLMPGESFSFNNTVGPRTEKRGYQG
                     APVIIGNKIESGLGGGICQVSGTLYNAMLKANINATERVRHTFPSTYVPIGMDATIDY
                     GNIDYKFKNTLTYPIYIEGITNGANVTFNIYSNSSLKNKTYNISSEIYETITPKEQYI
                     DDASIPLGKTEIVQEAHTGYKVKVYKSTVENDSVVKKELLYTDFYKPVDKIIKRGTKK
                     "
     misc_feature    247423..>247656
                     /locus_tag="CLC_0271"
                     /note="Putative peptidoglycan binding domain; Region:
                     PG_binding_4; pfam12229"
                     /db_xref="CDD:204855"
     misc_feature    247855..248250
                     /locus_tag="CLC_0271"
                     /note="VanW like protein; Region: VanW; pfam04294"
                     /db_xref="CDD:146762"
     misc_feature    248269..248502
                     /locus_tag="CLC_0271"
                     /note="G5 domain; Region: G5; pfam07501"
                     /db_xref="CDD:219434"
     gene            248652..249659
                     /gene="splB"
                     /locus_tag="CLC_0272"
                     /db_xref="GeneID:5400643"
                     /db_xref="Pathema:CLC_0272"
     CDS             248652..249659
                     /gene="splB"
                     /locus_tag="CLC_0272"
                     /EC_number="4.1.99.-"
                     /note="identified by match to protein family HMM PF04055"
                     /codon_start=1
                     /transl_table=11
                     /product="spore photoproduct lyase"
                     /protein_id="YP_001386172.1"
                     /db_xref="GI:153936417"
                     /db_xref="GeneID:5400643"
                     /db_xref="Pathema:CLC_0272"
                     /translation="MFIPKTVIFEEKALEYVRGKEILKELKNKNIEIKYSKTGRVTGQ
                     RDKTPNEMYSEGKDTLVIGIRKSLDFQSCKPSAHYQLPLVSGCMGMCEYCYLNTQMGK
                     RPYTKVYVNTEEILNKAEKYSRERLPEITVFEGAATSDPIPVEPYTHSLKDTIEFFGQ
                     KHNMKFRFVTKFTDVNSLVHLNHNRNTTIRFSINTDNIIRNFEHRTPLVIDRLKAAEK
                     IAKAGYSLGFIIAPVFIYRGWEKEYLDLLKNINIMFKGVPVEFEVISHRFTKRAKDNI
                     LSVFSNTTLPMVEENRKFKYGQFGYGKYIYKDEELQNIKKFFRDSITKFFGEDNINYI
                     I"
     misc_feature    248808..249656
                     /gene="splB"
                     /locus_tag="CLC_0272"
                     /note="DNA repair photolyase [DNA replication,
                     recombination, and repair]; Region: SplB; COG1533"
                     /db_xref="CDD:224450"
     misc_feature    248892..249476
                     /gene="splB"
                     /locus_tag="CLC_0272"
                     /note="Radical SAM superfamily. Enzymes of this family
                     generate radicals by combining a 4Fe-4S cluster and
                     S-adenosylmethionine (SAM) in close proximity. They are
                     characterized by a conserved CxxxCxxC motif, which
                     coordinates the conserved iron-sulfur cluster; Region:
                     Radical_SAM; cd01335"
                     /db_xref="CDD:100105"
     misc_feature    order(248910..248912,248916..248918,248922..248924,
                     248928..248936,249048..249050,249054..249059,
                     249156..249164,249225..249227,249342..249344,
                     249438..249443)
                     /gene="splB"
                     /locus_tag="CLC_0272"
                     /note="FeS/SAM binding site; other site"
                     /db_xref="CDD:100105"
     gene            249787..250254
                     /locus_tag="CLC_0273"
                     /db_xref="GeneID:5399168"
                     /db_xref="Pathema:CLC_0273"
     CDS             249787..250254
                     /locus_tag="CLC_0273"
                     /note="identified by match to protein family HMM PF00588;
                     match to protein family HMM TIGR00185"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386173.1"
                     /db_xref="GI:153935647"
                     /db_xref="GeneID:5399168"
                     /db_xref="Pathema:CLC_0273"
                     /translation="MSLNIVLFQPEIPQNTGNIARTCVLTNSRLHLIKPLGFSLDEKH
                     LRRAGLDYWQYLDLSIYESYEELREKYKDSNFYFSTTHGNNFYTDVKYSDGDFIVFGR
                     ESSGLPDEIRDSDPSKCIRVPMINTTTRSLNLSNTVAVVTYEALRQVGFPDMK"
     misc_feature    249787..250251
                     /locus_tag="CLC_0273"
                     /note="Predicted rRNA methylase (SpoU class) [Translation,
                     ribosomal structure and biogenesis]; Region: CspR;
                     COG0219"
                     /db_xref="CDD:223297"
     gene            250267..251106
                     /locus_tag="CLC_0274"
                     /db_xref="GeneID:5401609"
                     /db_xref="Pathema:CLC_0274"
     CDS             250267..251106
                     /locus_tag="CLC_0274"
                     /note="identified by match to protein family HMM PF02645;
                     match to protein family HMM TIGR00762"
                     /codon_start=1
                     /transl_table=11
                     /product="DegV family protein"
                     /protein_id="YP_001386174.1"
                     /db_xref="GI:153935282"
                     /db_xref="GeneID:5401609"
                     /db_xref="Pathema:CLC_0274"
                     /translation="MEKIKIITDSTADLPKDIIEKYDIEVIPLFVSFGDKVYKDGVDI
                     KLEQLFTKIEKENVFPQTSQVNPQRFYEYYKKYIDKGYSIISIHISSKMSGTYQSACL
                     AKDMLDSDNIIVIDSNNVTSGLGLLVIKACKLKDEGLFIEEIVKGVKETIPHIKSVLA
                     FETLDYLVKGGRLSKTAGFIGNVLGIKPILAVENGEMVVKDKVRGSKKAIRAIFEYIG
                     KLGLKQGEPCILLHVQNKDILGTLRENLNQDEANFIECTVGCVVGIYAGPRACGIFFI
                     EDY"
     misc_feature    250276..251091
                     /locus_tag="CLC_0274"
                     /note="EDD domain protein, DegV family; Region: DegV;
                     TIGR00762"
                     /db_xref="CDD:213558"
     misc_feature    250480..251100
                     /locus_tag="CLC_0274"
                     /note="Uncharacterized protein, DegV family COG1307;
                     Region: DegV; pfam02645"
                     /db_xref="CDD:217162"
     gene            251400..252503
                     /locus_tag="CLC_0275"
                     /db_xref="GeneID:5398459"
                     /db_xref="Pathema:CLC_0275"
     CDS             251400..252503
                     /locus_tag="CLC_0275"
                     /note="identified by match to protein family HMM PF02608"
                     /codon_start=1
                     /transl_table=11
                     /product="Bmp family lipoprotein"
                     /protein_id="YP_001386175.1"
                     /db_xref="GI:153937127"
                     /db_xref="GeneID:5398459"
                     /db_xref="Pathema:CLC_0275"
                     /translation="MKKKKIIALLATAVMAVSLFAGCGSKDSAGEKSADKKEKIKIGL
                     STDEGGLNDKSFNQSADAGVKKAQKELNVDYKPIESKQKEDYESNLEALVNDGSNLTF
                     GIGYQMEQAMTNVAKKYPDKNFAIVDTDKVTQPNVQCLTFKDHEGSFLMGVIAGKMTK
                     TNKVGFIGGKDSAAINKFEVGFIAGVKSVNPEAAKGLIGTKDKAGAMVKYADSFTDTN
                     KGYELGKSLYGAGCDVVYHAAGGVGIGLFKSAKELNKPDKRIWAIGVDEDQAVKVSEY
                     ADIILSSMIKRVDAATFNATKEVVDGTFKGGKHIELGLKEDGVGIAPTSNKNTSKETL
                     DLVQKYKEAIKEGKIKVPATREELVKFTPTEIK"
     misc_feature    251445..252470
                     /locus_tag="CLC_0275"
                     /note="Uncharacterized ABC-type transport system,
                     periplasmic component/surface lipoprotein [General
                     function prediction only]; Region: Med; COG1744"
                     /db_xref="CDD:224658"
     misc_feature    251520..252362
                     /locus_tag="CLC_0275"
                     /note="Periplasmic binding domain of basic membrane
                     lipoprotein, PnrA, in Treponema pallidum and its homologs
                     from other bacteria and Archaea; Region:
                     PBP1_BmpA_PnrA_like; cd06354"
                     /db_xref="CDD:107349"
     misc_feature    order(251538..251543,251568..251570,251781..251783,
                     251922..251924,252039..252041,252117..252119,
                     252195..252197,252255..252257)
                     /locus_tag="CLC_0275"
                     /note="ligand binding site [chemical binding]; other site"
                     /db_xref="CDD:107349"
     gene            252669..254219
                     /locus_tag="CLC_0276"
                     /db_xref="GeneID:5399904"
                     /db_xref="Pathema:CLC_0276"
     CDS             252669..254219
                     /locus_tag="CLC_0276"
                     /note="identified by match to protein family HMM PF00005"
                     /codon_start=1
                     /transl_table=11
                     /product="sugar ABC transporter ATP-binding protein"
                     /protein_id="YP_001386176.1"
                     /db_xref="GI:153936866"
                     /db_xref="GeneID:5399904"
                     /db_xref="Pathema:CLC_0276"
                     /translation="MARKKHMEKVIEMKGITKVFPGTVANDDVSFDLNKSETHVLLGE
                     NGAGKTTLMNVLYGLYQPEKGQIFVSGKEVKILGPNDAIKQGIGMVHQHFMLVHNFTV
                     AENIVLGIEPRKGLKIDINKAIKDVEKISKKYGFSIDPNAIIEDISVGQQQKVEILKA
                     LYRGAEILILDEPTAVLTPQEIDELGVIIDNLKKQGKSIILITHKLKEVMKMSDRVTI
                     IRRGKITGIVNTKETNIDQLAEFMVGRKVNLQMDKKPQNLGKEVLKVENLQAKDRRGV
                     NVLKGVNLSVREGEIVGIAGVDGNGQSEFIEVLTGLRKADAGSINLNEEEIFNKSSRQ
                     IIDKGIGHIPEDRHKRGLILKYSLYENSVLGKHHKAPFSKGIVMDYKAIRRHCNELIE
                     EFDVRTPNDEVNASALSGGNQQKLIAAREISKDPNLLIASQPTRGLDVGAIEYIHKRL
                     VAERDNGKAVLLVSLELDEILSLSDRIAVMYDGKIIEILDRKDATEQKLGVLMAGGKL
                     EDTRKEVK"
     misc_feature    252687..254183
                     /locus_tag="CLC_0276"
                     /note="ABC-type uncharacterized transport systems, ATPase
                     components [General function prediction only]; Region:
                     COG3845"
                     /db_xref="CDD:226364"
     misc_feature    252699..253346
                     /locus_tag="CLC_0276"
                     /note="First domain of the ATP-binding cassette component
                     of monosaccharide transport system; Region:
                     ABC_Carb_Monos_I; cd03216"
                     /db_xref="CDD:213183"
     misc_feature    252795..252818
                     /locus_tag="CLC_0276"
                     /note="Walker A/P-loop; other site"
                     /db_xref="CDD:213183"
     misc_feature    order(252804..252809,252813..252821,252942..252944,
                     253179..253184,253278..253280)
                     /locus_tag="CLC_0276"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:213183"
     misc_feature    252933..252944
                     /locus_tag="CLC_0276"
                     /note="Q-loop/lid; other site"
                     /db_xref="CDD:213183"
     misc_feature    order(252966..252980,253119..253124,253128..253136)
                     /locus_tag="CLC_0276"
                     /note="ABC transporter signature motif; other site"
                     /db_xref="CDD:213183"
     misc_feature    253167..253184
                     /locus_tag="CLC_0276"
                     /note="Walker B; other site"
                     /db_xref="CDD:213183"
     misc_feature    253191..253202
                     /locus_tag="CLC_0276"
                     /note="D-loop; other site"
                     /db_xref="CDD:213183"
     misc_feature    253266..253286
                     /locus_tag="CLC_0276"
                     /note="H-loop/switch region; other site"
                     /db_xref="CDD:213183"
     misc_feature    253443..254123
                     /locus_tag="CLC_0276"
                     /note="Second domain of the ATP-binding cassette component
                     of monosaccharide transport system; Region:
                     ABC_Carb_Monos_II; cd03215"
                     /db_xref="CDD:213182"
     gene            254221..255324
                     /locus_tag="CLC_0277"
                     /db_xref="GeneID:5398680"
                     /db_xref="Pathema:CLC_0277"
     CDS             254221..255324
                     /locus_tag="CLC_0277"
                     /note="identified by match to protein family HMM PF02653"
                     /codon_start=1
                     /transl_table=11
                     /product="sugar ABC transporter permease"
                     /protein_id="YP_001386177.1"
                     /db_xref="GI:153936085"
                     /db_xref="GeneID:5398680"
                     /db_xref="Pathema:CLC_0277"
                     /translation="MSENNKKRTISNGLINVLKSLAFPLGAIVISIFVSVFFVMWAKG
                     YSITQYFSAFSDLFTTIWQGSFGDKRKTLETMIYVTPLIFTGVANAIAFRCGLFNIGV
                     EGQFIVGMISAAVLGLIPGLNPVVHGILIILGGIVAGSIWGGIPGYLKAKVGTNEVIN
                     TIMMNYLGLYLGNYIILRSRFSVKSSASTPIIQKSAQLLRFSSTSRASISLIIGIVFA
                     IFVYWLLWKTTVGYEIRAVGFNPSGAEYGGINVAKNTILAMVLSGAIAGIGGATHVAG
                     VMHQAQDMMVLPGFGFDGIAVALLAKNNPIGCIASAILFGALNSSSKMLQLNGIPKQI
                     VYLVQSIIIIFVATDYIVKYFSEKKNRKVLING"
     misc_feature    254437..255261
                     /locus_tag="CLC_0277"
                     /note="Branched-chain amino acid transport system /
                     permease component; Region: BPD_transp_2; pfam02653"
                     /db_xref="CDD:217165"
     misc_feature    254458..255261
                     /locus_tag="CLC_0277"
                     /note="Transmembrane subunit (TM) of Treponema pallidum
                     (Tp) RbsC-1, RbsC-2 and related proteins. This is a
                     functionally uncharacterized subgroup of TMs which belong
                     to a larger group of TMs of Periplasmic Binding Protein
                     (PBP)-dependent ATP-Binding Cassette; Region:
                     TM_PBP1_transp_TpRbsC_like; cd06580"
                     /db_xref="CDD:119322"
     misc_feature    254944..255000
                     /locus_tag="CLC_0277"
                     /note="TM-ABC transporter signature motif; other site"
                     /db_xref="CDD:119322"
     gene            255317..256243
                     /locus_tag="CLC_0278"
                     /db_xref="GeneID:5399709"
                     /db_xref="Pathema:CLC_0278"
     CDS             255317..256243
                     /locus_tag="CLC_0278"
                     /note="identified by match to protein family HMM PF02653"
                     /codon_start=1
                     /transl_table=11
                     /product="sugar ABC transporter permease"
                     /protein_id="YP_001386178.1"
                     /db_xref="GI:153937391"
                     /db_xref="GeneID:5399709"
                     /db_xref="Pathema:CLC_0278"
                     /translation="MDSLIIIGLVTATLRTATPLVFAGLGGVFSERAGVVNIGLEGMM
                     VMGAFFSVYGTYLTGSPLVGIVFAIVAGALIALLHAFLSISLKADQVISGTAINLFSS
                     ALASFLIFKIFKKGGQTDIVKALAYNVPASVKSIPIIGPILSGINWFVIIALILVFIS
                     HYILFKTPVGLRIRAVGEHPKAADTLGINVYKVRYLCVMLSGALAGLGGAALIGITPV
                     YREGMVAGRGFIALAAMIFGNWKPFGTMFACLLFAFGGSFEIFAQGFSWNLPSEFYSS
                     IPYILTMLALAGFVGKTTPPAADGQPYEKNSR"
     misc_feature    255353..256174
                     /locus_tag="CLC_0278"
                     /note="Branched-chain amino acid transport system /
                     permease component; Region: BPD_transp_2; pfam02653"
                     /db_xref="CDD:217165"
     misc_feature    255365..256174
                     /locus_tag="CLC_0278"
                     /note="Transmembrane subunit (TM) of Treponema pallidum
                     (Tp) RbsC-1, RbsC-2 and related proteins. This is a
                     functionally uncharacterized subgroup of TMs which belong
                     to a larger group of TMs of Periplasmic Binding Protein
                     (PBP)-dependent ATP-Binding Cassette; Region:
                     TM_PBP1_transp_TpRbsC_like; cd06580"
                     /db_xref="CDD:119322"
     misc_feature    255857..255913
                     /locus_tag="CLC_0278"
                     /note="TM-ABC transporter signature motif; other site"
                     /db_xref="CDD:119322"
     gene            256355..257080
                     /locus_tag="CLC_0279"
                     /db_xref="GeneID:5400175"
                     /db_xref="Pathema:CLC_0279"
     CDS             256355..257080
                     /locus_tag="CLC_0279"
                     /note="identified by match to protein family HMM PF01522"
                     /codon_start=1
                     /transl_table=11
                     /product="polysaccharide deacetylase"
                     /protein_id="YP_001386179.1"
                     /db_xref="GI:153937491"
                     /db_xref="GeneID:5400175"
                     /db_xref="Pathema:CLC_0279"
                     /translation="MKKFLGKISISLILLLCLSTSYVYAFNEESKADNNSKENKTIYL
                     TFDDGPSTNTNKVLDTLNEYNVKATFFLIGNQIKDQEEVVKRTQDEGHSIGLHTYTHD
                     FKKIYSNNQTFIDEMLKCQEEIYRVTGTRPNIIRFPGGSVKRLNKGFKKELEEKHFKV
                     YDWNVDCQDGMKAKMSPNRIFKKATESNGKDEPIILLMHCDYMQKNTCKALPEIIKFY
                     KDKGYEFKTINNETPECYFPLRK"
     misc_feature    <256469..257047
                     /locus_tag="CLC_0279"
                     /note="Predicted xylanase/chitin deacetylase [Carbohydrate
                     transport and metabolism]; Region: CDA1; COG0726"
                     /db_xref="CDD:223798"
     misc_feature    256472..257035
                     /locus_tag="CLC_0279"
                     /note="Catalytic NodB homology domain of Streptococcus
                     mutans polysaccharide deacetylase PgdA, Bacillus subtilis
                     YheN, and similar proteins; Region: CE4_SmPgdA_like;
                     cd10944"
                     /db_xref="CDD:200569"
     misc_feature    order(256487..256498,256643..256660,256760..256762,
                     256766..256771,256841..256843,256859..256864,
                     256943..256945,256949..256951)
                     /locus_tag="CLC_0279"
                     /note="NodB motif; other site"
                     /db_xref="CDD:200569"
     misc_feature    order(256493..256498,256643..256645,256655..256657,
                     256766..256774,256841..256843,256943..256945,
                     256949..256951)
                     /locus_tag="CLC_0279"
                     /note="active site"
                     /db_xref="CDD:200569"
     misc_feature    order(256493..256495,256760..256762,256859..256861,
                     256949..256951)
                     /locus_tag="CLC_0279"
                     /note="catalytic site [active]"
                     /db_xref="CDD:200569"
     misc_feature    order(256496..256498,256643..256645,256655..256657)
                     /locus_tag="CLC_0279"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:200569"
     gene            257409..258782
                     /gene="rpoN"
                     /locus_tag="CLC_0280"
                     /db_xref="GeneID:5399873"
                     /db_xref="Pathema:CLC_0280"
     CDS             257409..258782
                     /gene="rpoN"
                     /locus_tag="CLC_0280"
                     /note="sigma factors are initiation factors that promote
                     the attachment of RNA polymerase to specific initiation
                     sites and are then released; sigma 54 factor is
                     responsible for the expression of enzymes involved in
                     nitrogen assimilation and metabolism; the rhizobia often
                     have 2 copies of this sigma factor; in Rhizobium etli
                     RpoN1 shown to be involved in the assimilation of several
                     nitrogen and carbon sources during free-living aerobic
                     growth and RpoN2 is involved in symbiotic nitrogen
                     fixation; in Bradyrhizobium both RpoN1 and N2 are
                     functional in free-living and symbiotic conditions, rpoN1
                     gene was regulated in response to oxygen"
                     /codon_start=1
                     /transl_table=11
                     /product="RNA polymerase factor sigma-54"
                     /protein_id="YP_001386180.1"
                     /db_xref="GI:153935180"
                     /db_xref="GeneID:5399873"
                     /db_xref="Pathema:CLC_0280"
                     /translation="MNMNFGLSLTQEQKLIMTQQMQLSIKLLQMSTYELQQYVEKEVQ
                     ENPVLDSQNIHKEDKGIEDINYKKLIKHLEDNGNEYGSYSSYNKEEETSPFNFISNEK
                     SLKEYLQEQIIELNENKYIKSICIYIIENIDDKGYLSVRDEEISEELKVPLHSIEEAI
                     DIVQSLEPDGIGARNLKECLKIQLKKKSINNSKICEIIDNFLPLVAENRYNVISKKLS
                     ISIKKAQEYGDVIKTLQPKPSRGFYTGDEVKYIVPDAYIKKIDNEYYIIMNEELLPKL
                     TVNNLYKDIVLNDTDENAVEFVKEKLNSAIFLIKSIENRKSTIYRVLEKILEIQRDYF
                     DLGIKFLKPMTLKEIADSLGMHESTISRAIRDKYINTNRGTILIKDLFTTGITANNST
                     GEDISVEFIKREIKELIDKEDKKKPISDQIICNILNNKGIQISRRTVAKYREELGIQS
                     SKCRKRF"
     misc_feature    257415..258779
                     /gene="rpoN"
                     /locus_tag="CLC_0280"
                     /note="RNA polymerase factor sigma-54; Reviewed; Region:
                     PRK05932"
                     /db_xref="CDD:235648"
     misc_feature    257421..257558
                     /gene="rpoN"
                     /locus_tag="CLC_0280"
                     /note="Sigma-54 factor, Activator interacting domain
                     (AID); Region: Sigma54_AID; pfam00309"
                     /db_xref="CDD:215850"
     misc_feature    257673..258254
                     /gene="rpoN"
                     /locus_tag="CLC_0280"
                     /note="Sigma-54 factor, core binding domain; Region:
                     Sigma54_CBD; pfam04963"
                     /db_xref="CDD:218353"
     misc_feature    258294..258776
                     /gene="rpoN"
                     /locus_tag="CLC_0280"
                     /note="Sigma-54, DNA binding domain; Region: Sigma54_DBD;
                     pfam04552"
                     /db_xref="CDD:218144"
     gene            259070..260101
                     /gene="cggR"
                     /locus_tag="CLC_0281"
                     /db_xref="GeneID:5399543"
                     /db_xref="Pathema:CLC_0281"
     CDS             259070..260101
                     /gene="cggR"
                     /locus_tag="CLC_0281"
                     /note="identified by match to protein family HMM PF04198"
                     /codon_start=1
                     /transl_table=11
                     /product="central glycolytic genes regulator"
                     /protein_id="YP_001386181.1"
                     /db_xref="GI:153936137"
                     /db_xref="GeneID:5399543"
                     /db_xref="Pathema:CLC_0281"
                     /translation="MEDILKLQQKIVPEMLKLLEKRYNILRTIYYKQPIGRRVLANDL
                     EIGERIVRTEINFLKNQSLIDINSSGMTVTKEGEEIIDRLKSFIHEVKGLKEIESILK
                     NKLEIFEVIIVPGNLDEDITVKNELGKAAANYLKNIVQDKDIIALTGGSTVKEVVDNM
                     PKINTLKDAVVVPARGGIGRDVELQANTLVANLASKINANYKLMHVQDNLSEAALKAV
                     MEEKSIKEVLDMIHKVNILIHGIGIAEVMATRRGIPSEEIAYIEEKKAVAEAFGYYFD
                     MKGNIVHSSPTIGIKRESIRNANKLIAVSGGKKKAKAILAAEVRNKNSVLITDEGAAR
                     EIINILENE"
     misc_feature    259094..260092
                     /gene="cggR"
                     /locus_tag="CLC_0281"
                     /note="Transcriptional regulator, contains sigma
                     factor-related N-terminal domain [Transcription]; Region:
                     DeoR; COG2390"
                     /db_xref="CDD:225263"
     misc_feature    259334..260083
                     /gene="cggR"
                     /locus_tag="CLC_0281"
                     /note="Putative sugar-binding domain; Region: Sugar-bind;
                     pfam04198"
                     /db_xref="CDD:217959"
     gene            260179..261186
                     /gene="gap-1"
                     /locus_tag="CLC_0282"
                     /db_xref="GeneID:5401338"
                     /db_xref="Pathema:CLC_0282"
     CDS             260179..261186
                     /gene="gap-1"
                     /locus_tag="CLC_0282"
                     /EC_number="1.2.1.-"
                     /note="identified by match to protein family HMM PF00044;
                     match to protein family HMM PF02800; match to protein
                     family HMM TIGR01534"
                     /codon_start=1
                     /transl_table=11
                     /product="glyceraldehyde-3-phosphate dehydrogenase, type
                     I"
                     /protein_id="YP_001386182.1"
                     /db_xref="GI:153936763"
                     /db_xref="GeneID:5401338"
                     /db_xref="Pathema:CLC_0282"
                     /translation="MVKVAINGFGRIGRNVFKALVKNYKDQLQVVAINDLTSPATLAH
                     LLKYDSLYGKFDGTVEAKETSIVVNGNEIKIFAERDPKNIDWNSTGAEIVIESTGLFT
                     DGEKANAHLGGTVKKVLISAPAKNEDKTIVMGVNHEEYDPANHNIISNASCTTNCLAP
                     FAKVLDENFGIESGLMTTIHAYTGDQRVLDAPHKDLRRARAAAESMIPTTTGAAKAVA
                     LVLPQLKGKLNGMAVRVPTPTVSLTDLVFTVKKDVTVEEINAALKKAAEGELKGILGY
                     SEEPLVSIDYRGDERSSIVDALSTSVIDNRLVKVVSWYDNEYGYSHRLADLTKFVADR
                     L"
     misc_feature    260179..261183
                     /gene="gap-1"
                     /locus_tag="CLC_0282"
                     /note="Glyceraldehyde-3-phosphate
                     dehydrogenase/erythrose-4-phosphate dehydrogenase
                     [Carbohydrate transport and metabolism]; Region: GapA;
                     COG0057"
                     /db_xref="CDD:223135"
     misc_feature    260182..260637
                     /gene="gap-1"
                     /locus_tag="CLC_0282"
                     /note="Glyceraldehyde 3-phosphate dehydrogenase, NAD
                     binding domain; Region: Gp_dh_N; smart00846"
                     /db_xref="CDD:214851"
     misc_feature    260650..261120
                     /gene="gap-1"
                     /locus_tag="CLC_0282"
                     /note="Glyceraldehyde 3-phosphate dehydrogenase,
                     C-terminal domain; Region: Gp_dh_C; pfam02800"
                     /db_xref="CDD:217235"
     gene            261483..262679
                     /gene="pgk"
                     /locus_tag="CLC_0283"
                     /db_xref="GeneID:5400065"
                     /db_xref="Pathema:CLC_0283"
     CDS             261483..262679
                     /gene="pgk"
                     /locus_tag="CLC_0283"
                     /EC_number="2.7.2.3"
                     /note="Converts 3-phospho-D-glycerate to
                     3-phospho-D-glyceroyl phosphate during the glycolysis
                     pathway"
                     /codon_start=1
                     /transl_table=11
                     /product="phosphoglycerate kinase"
                     /protein_id="YP_001386183.1"
                     /db_xref="GI:153937674"
                     /db_xref="GeneID:5400065"
                     /db_xref="Pathema:CLC_0283"
                     /translation="MNYNKKSIEDIDVKGKKVLVRCDFNVPLNEGKITDENRLVGALP
                     TIKYLMEKGAKIILCSHMGKPKGEPKKELSLLPVAKRLSEMLNKEVIFADDDNVVGEN
                     AKKAVEDMKDGDVVLLQNTRYRKEETKNEEVFSKELASLADVFVNDAFGTAHRAHCST
                     VGVTNYLKEAACGYLIQKELKFLGNAVEKPERPFVAILGGAKVSDKINVINNLLDKVD
                     TLIIGGGMGYTFLKAQGYTIGNSLVEEDKVEYSKEMIDKAKEKGVNLLLPIDNVVADK
                     FDKDASPVITEDQNIGEGYMGLDIGPKTAKIYSDAIKSAKTVVWNGPMGVFEFKSFAN
                     GTIEVAKAMADSDAVTIIGGGDSAAAVNILGFGDKMTHISTGGGASLEFLEGKELPGI
                     AALNDK"
     misc_feature    261501..262643
                     /gene="pgk"
                     /locus_tag="CLC_0283"
                     /note="Phosphoglycerate kinase; Region: PGK; pfam00162"
                     /db_xref="CDD:215761"
     misc_feature    261504..262673
                     /gene="pgk"
                     /locus_tag="CLC_0283"
                     /note="Phosphoglycerate kinase (PGK) is a monomeric enzyme
                     which catalyzes the transfer of the high-energy phosphate
                     group of 1,3-bisphosphoglycerate to ADP, forming ATP and
                     3-phosphoglycerate. This reaction represents the first of
                     the two substrate-level...; Region:
                     Phosphoglycerate_kinase; cd00318"
                     /db_xref="CDD:238195"
     misc_feature    order(261549..261551,261555..261557,261594..261596,
                     261663..261665,261846..261848)
                     /gene="pgk"
                     /locus_tag="CLC_0283"
                     /note="substrate binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:238195"
     misc_feature    order(262041..262052,262599..262607)
                     /gene="pgk"
                     /locus_tag="CLC_0283"
                     /note="hinge regions; other site"
                     /db_xref="CDD:238195"
     misc_feature    order(262155..262157,262371..262373,262443..262445,
                     262449..262451,262455..262466,262545..262553)
                     /gene="pgk"
                     /locus_tag="CLC_0283"
                     /note="ADP binding site [chemical binding]; other site"
                     /db_xref="CDD:238195"
     misc_feature    262548..262550
                     /gene="pgk"
                     /locus_tag="CLC_0283"
                     /note="catalytic site [active]"
                     /db_xref="CDD:238195"
     gene            262741..263487
                     /gene="tpiA"
                     /locus_tag="CLC_0284"
                     /db_xref="GeneID:5400030"
                     /db_xref="Pathema:CLC_0284"
     CDS             262741..263487
                     /gene="tpiA"
                     /locus_tag="CLC_0284"
                     /EC_number="5.3.1.1"
                     /note="Reversibly isomerizes the ketone sugar
                     dihydroxyacetone phosphate to the aldehyde sugar
                     glyceraldehyde-3-phosphate"
                     /codon_start=1
                     /transl_table=11
                     /product="triosephosphate isomerase"
                     /protein_id="YP_001386184.1"
                     /db_xref="GI:153935201"
                     /db_xref="GeneID:5400030"
                     /db_xref="Pathema:CLC_0284"
                     /translation="MRTAIIAGNWKMNKTVKEAVELVKELKPLVKDAKCDVVVCPTYV
                     CLPAVLEEVKGSNIKVGAQNMHFEESGAYTGEIAPKMLEELGVHYVIIGHSERRQYFN
                     ETDETVNKKVKKAFEHNLIPIVCCGESLEEREGNITEKVLEGQIKVGLKELSKEQVEK
                     LVIAYEPIWAIGTGKTATDEQANETIGYIRTVVKAMYGESVADKIRIQYGGSVKPGTI
                     KAQMAKEEIDGALVGGASLKAEDFAAIVNY"
     misc_feature    262753..263481
                     /gene="tpiA"
                     /locus_tag="CLC_0284"
                     /note="triosephosphate isomerase; Provisional; Region:
                     PRK14567"
                     /db_xref="CDD:173031"
     misc_feature    262753..263481
                     /gene="tpiA"
                     /locus_tag="CLC_0284"
                     /note="Triosephosphate isomerase (TIM) is a glycolytic
                     enzyme that catalyzes the interconversion of
                     dihydroxyacetone phosphate and
                     D-glyceraldehyde-3-phosphate. The reaction is very
                     efficient and requires neither cofactors nor metal ions.
                     TIM, usually...; Region: TIM; cd00311"
                     /db_xref="CDD:238190"
     misc_feature    order(262765..262767,262771..262773,263020..263022,
                     263236..263238,263254..263256,263374..263376,
                     263431..263433,263437..263442)
                     /gene="tpiA"
                     /locus_tag="CLC_0284"
                     /note="substrate binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:238190"
     misc_feature    order(262765..262767,262774..262776,262867..262875,
                     262879..262881,262888..262890,262927..262929,
                     262981..262983,262990..262995,263026..263031)
                     /gene="tpiA"
                     /locus_tag="CLC_0284"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:238190"
     misc_feature    order(262771..262773,263020..263022,263236..263238)
                     /gene="tpiA"
                     /locus_tag="CLC_0284"
                     /note="catalytic triad [active]"
                     /db_xref="CDD:238190"
     gene            263579..265108
                     /gene="gpmI"
                     /locus_tag="CLC_0285"
                     /db_xref="GeneID:5400999"
                     /db_xref="Pathema:CLC_0285"
     CDS             263579..265108
                     /gene="gpmI"
                     /locus_tag="CLC_0285"
                     /EC_number="5.4.2.1"
                     /note="catalyzes the interconversion of 2-phosphoglycerate
                     and 3-phosphoglycerate"
                     /codon_start=1
                     /transl_table=11
                     /product="phosphoglyceromutase"
                     /protein_id="YP_001386185.1"
                     /db_xref="GI:153936169"
                     /db_xref="GeneID:5400999"
                     /db_xref="Pathema:CLC_0285"
                     /translation="MSKKPVVLMILDGFGLTNKVDGNAVSAANKPNLDNILKKYPHTQ
                     LGASGMDVGLPEGQMGNSEVGHLNIGAGRIVYQALTKITKSISDGDFFENVALNKAIE
                     NVKKNNSTLHLLGLLSPGGVHSHIDHLKGLIKLAKEKDIKKVYIHAFLDGRDVAPSSA
                     KEYIEDIENYMNEIGVGEIATISGRYYAMDRDKRWERVQLCYNAIVLGKGEEANSAVE
                     GLEKSYRDNKTDEFVLPSVVLKEGKPKAKIENKDSVVFFNFRPDRARELTRAINDKVF
                     DGFERETLDLTYVTVTEYDSTLENVEVAFPPEHLNNTLGEYVSKNGKKQLRIAETEKY
                     AHVTFFFNGGVEEPNEGEDRVLIPSPKVATYDMQPEMNAYEVTDKLLERLDEDKYDMV
                     ILNFANPDMVGHTGVFEAAKKAIETVDECVGKIVNKVLEKDGTAFITADHGNSEEMID
                     YSTGKPMTAHTTNPVPFMYVSKNSKELREGGKLADIAPTMLQLMNLPKPSEMTGNSLI
                     K"
     misc_feature    263579..265105
                     /gene="gpmI"
                     /locus_tag="CLC_0285"
                     /note="Phosphoglyceromutase [Carbohydrate transport and
                     metabolism]; Region: GpmI; COG0696"
                     /db_xref="CDD:223768"
     misc_feature    263579..265105
                     /gene="gpmI"
                     /locus_tag="CLC_0285"
                     /note="phosphoglyceromutase; Provisional; Region:
                     PRK05434"
                     /db_xref="CDD:235463"
     gene            265164..266459
                     /gene="eno"
                     /locus_tag="CLC_0286"
                     /db_xref="GeneID:5400188"
                     /db_xref="Pathema:CLC_0286"
     CDS             265164..266459
                     /gene="eno"
                     /locus_tag="CLC_0286"
                     /EC_number="4.2.1.11"
                     /note="enolase; catalyzes the formation of
                     phosphoenolpyruvate from 2-phospho-D-glycerate in
                     glycolysis"
                     /codon_start=1
                     /transl_table=11
                     /product="phosphopyruvate hydratase"
                     /protein_id="YP_001386186.1"
                     /db_xref="GI:153936384"
                     /db_xref="GeneID:5400188"
                     /db_xref="Pathema:CLC_0286"
                     /translation="MKNYIEIVDVYARQILDSRCNPTVEVEVELEDGTVGVAAVPSGA
                     STGAFEAVELRDGDKSKYLGKGVLKAVDNVNTIIADELVGMNVLDQVAIDKTMIELDG
                     TDNKAKLGANAMLGVSLACAKAAANSLGMSLYQYIGGVNGKVLPVPMMNIINGGKHAD
                     NNVDLQEFMIMPAGAPSFSEALRMCSEVYHALKSTLKAQGYDTGVGDEGGFAPNLKSN
                     EEAIVVIIEAIKKAGYTPGEDIFIALDPASSEIFEDGKYNLAGEGRVLTPEEMANYYV
                     ELAEKYPIISIEDGMAEEDWDGWKILTEKIGNKVQLVGDDLFVTNTERLSKGIKLGVA
                     NSILIKLNQIGTLTETLNAIEMAERAGYTAVVSHRSGETEDTTIADLVVAVNAGQIKT
                     GAPARSERVAKYNQLLRIEEELNDMGEYRGLKAFYNINK"
     misc_feature    265179..266453
                     /gene="eno"
                     /locus_tag="CLC_0286"
                     /note="enolase; Provisional; Region: eno; PRK00077"
                     /db_xref="CDD:234617"
     misc_feature    265188..266402
                     /gene="eno"
                     /locus_tag="CLC_0286"
                     /note="Enolase: Enolases are homodimeric enzymes that
                     catalyse the reversible dehydration of
                     2-phospho-D-glycerate to phosphoenolpyruvate as part of
                     the glycolytic and gluconeogenesis pathways. The reaction
                     is facilitated by the presence of metal ions; Region:
                     enolase; cd03313"
                     /db_xref="CDD:239429"
     misc_feature    order(265194..265196,265200..265226,265236..265238,
                     265272..265274,265638..265646,265707..265712,
                     265719..265724,265731..265736,265773..265778,
                     265797..265799,265803..265805,266277..266285,
                     266352..266360,266364..266369,266376..266378,
                     266385..266390,266397..266399)
                     /gene="eno"
                     /locus_tag="CLC_0286"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:239429"
     misc_feature    order(265296..265298,265896..265898,266025..266027,
                     266106..266108)
                     /gene="eno"
                     /locus_tag="CLC_0286"
                     /note="metal binding site [ion binding]; metal-binding
                     site"
                     /db_xref="CDD:239429"
     misc_feature    order(265635..265637,265785..265787,266181..266183,
                     266265..266273,266334..266336)
                     /gene="eno"
                     /locus_tag="CLC_0286"
                     /note="substrate binding pocket [chemical binding]; other
                     site"
                     /db_xref="CDD:239429"
     gene            266682..266915
                     /gene="secG"
                     /locus_tag="CLC_0287"
                     /db_xref="GeneID:5401378"
                     /db_xref="Pathema:CLC_0287"
     CDS             266682..266915
                     /gene="secG"
                     /locus_tag="CLC_0287"
                     /note="identified by match to protein family HMM PF03840;
                     match to protein family HMM TIGR00810"
                     /codon_start=1
                     /transl_table=11
                     /product="preprotein translocase subunit SecG"
                     /protein_id="YP_001386187.1"
                     /db_xref="GI:153937200"
                     /db_xref="GeneID:5401378"
                     /db_xref="Pathema:CLC_0287"
                     /translation="MHTFSIILLTIVSITLIVVVLMQPSKTNGLSGFMGGGSETFYSK
                     NRTRTSESVLSRITVVCSILFAIIVLAQNLLSK"
     misc_feature    <266745..266912
                     /gene="secG"
                     /locus_tag="CLC_0287"
                     /note="Preprotein translocase SecG subunit; Region: SecG;
                     pfam03840"
                     /db_xref="CDD:217757"
     gene            267124..269301
                     /gene="rnr"
                     /locus_tag="CLC_0288"
                     /db_xref="GeneID:5398708"
                     /db_xref="Pathema:CLC_0288"
     CDS             267124..269301
                     /gene="rnr"
                     /locus_tag="CLC_0288"
                     /EC_number="3.1.-.-"
                     /note="identified by match to protein family HMM PF00575;
                     match to protein family HMM PF00773; match to protein
                     family HMM PF08206; match to protein family HMM TIGR00358;
                     match to protein family HMM TIGR02063"
                     /codon_start=1
                     /transl_table=11
                     /product="ribonuclease R"
                     /protein_id="YP_001386188.1"
                     /db_xref="GI:153934693"
                     /db_xref="GeneID:5398708"
                     /db_xref="Pathema:CLC_0288"
                     /translation="MNIRETILAFMEEQAYKPMDIKELKQVFGVTKHEYKEFEKMLKD
                     MEKDGQIVKTRTEHYGIPARMGLVLGKLQGHQKGFGFVIPEEEREDIFIPASSMNGAM
                     HTDRVLAKITKESANGKRCEGEIIRILERGNKTVIGIYEDSKNFGFVVSDDKKIYQDI
                     FIPKGDKNGAKTGQVVIAEIVTYPEKRRNPEGRVIEILGNKEDKGIDILTIIKKNKLP
                     EEFPPKVQSYADNISEAIPEEEYKRREDLRDLTIVTIDGEDAKDLDDAISLEKLPNGN
                     YYLGVHIADVSHYVKEKNPLDKEALKRATSVYLIDRVIPMLPKKLSNGICSLNPKIDR
                     LTLSCFMEIDKNGKVVDHRVVESIIKSTERMTYTDVTKILRDEDEETINKYSNLVDYF
                     KLMEELCKILYKKRLKRGAIDFDFEECKIILDEKGKPIEIKPYERAIANRIIEEFMLV
                     CNETIAEHMFWSNLPFVYRIHEDPDEEKLMHFNEFVHNLGYVIRWNNDIHPKSLQSII
                     EKVKGEKEETVVSTLLLRSLKQARYSPECIGHFGLAARYYCHFTSPIRRYPDLIIHRI
                     IKEYINGQIDDKRATKLTTEVEYASKQSSEMERVAQEAEREVDDLKKAEYMSERIGEE
                     YEGIISSVTNFGMFVELPNTIEGLVHISTLSDDYYIYDERRLSLIGEASKNIYRLGDT
                     VKIKVSKVDLFSHEIYFDIIKDNEEDKEEVEFIEETEKYNTNL"
     misc_feature    267124..269220
                     /gene="rnr"
                     /locus_tag="CLC_0288"
                     /note="ribonuclease R; Region: RNase_R; TIGR02063"
                     /db_xref="CDD:233703"
     misc_feature    267331..267507
                     /gene="rnr"
                     /locus_tag="CLC_0288"
                     /note="Ribonuclease B OB domain; Region: OB_RNB;
                     pfam08206"
                     /db_xref="CDD:203875"
     misc_feature    267550..267714
                     /gene="rnr"
                     /locus_tag="CLC_0288"
                     /note="S1_like: Ribosomal protein S1-like RNA-binding
                     domain. Found in a wide variety of RNA-associated
                     proteins. Originally identified in S1 ribosomal protein.
                     This superfamily also contains the Cold Shock Domain
                     (CSD), which is a homolog of the S1 domain; Region:
                     S1_like; cl09927"
                     /db_xref="CDD:245202"
     misc_feature    267853..268836
                     /gene="rnr"
                     /locus_tag="CLC_0288"
                     /note="RNB domain; Region: RNB; pfam00773"
                     /db_xref="CDD:216112"
     misc_feature    268984..269220
                     /gene="rnr"
                     /locus_tag="CLC_0288"
                     /note="S1_RNase_R: RNase R C-terminal S1 domain. RNase R
                     is a processive 3' to 5' exoribonuclease, which is a
                     homolog of RNase II. RNase R degrades RNA with secondary
                     structure having a 3' overhang of at least 7 nucleotides.
                     RNase R and PNPase...; Region: S1_RNase_R; cd04471"
                     /db_xref="CDD:239917"
     misc_feature    order(269011..269013,269035..269037,269065..269067,
                     269071..269073)
                     /gene="rnr"
                     /locus_tag="CLC_0288"
                     /note="RNA binding site [nucleotide binding]; other site"
                     /db_xref="CDD:239917"
     gene            269710..270468
                     /gene="surE"
                     /locus_tag="CLC_0289"
                     /db_xref="GeneID:5399786"
                     /db_xref="Pathema:CLC_0289"
     CDS             269710..270468
                     /gene="surE"
                     /locus_tag="CLC_0289"
                     /EC_number="3.1.3.2"
                     /note="catalyzes the conversion of a phosphate monoester
                     to an alcohol and a phosphate"
                     /codon_start=1
                     /transl_table=11
                     /product="stationary phase survival protein SurE"
                     /protein_id="YP_001386189.1"
                     /db_xref="GI:153935686"
                     /db_xref="GeneID:5399786"
                     /db_xref="Pathema:CLC_0289"
                     /translation="MNILLTNDDGIEAEGINTLAELLSKYHDVIMVAPENQRSASSHS
                     ITIYEPIIVKQVKKPYNIEAYSISGTPADCVRVALDKLVPDNIDMVISGINKGLNIGN
                     DILYSGTVSAAIEGAMYKVPSMAVSAQFIKNKKENYKIAAKYALRMLNRLKKEDLKND
                     VVLNLNIPFCSEEEIKGIKVCKVGNKIFNTRFSEEIDEEGNKVLKLEGDINKDIYEGT
                     DVYYIRNKYVTLTPLHYDLTNFNILEETEQLFLS"
     misc_feature    269710..270465
                     /gene="surE"
                     /locus_tag="CLC_0289"
                     /note="stationary phase survival protein SurE;
                     Provisional; Region: PRK13933"
                     /db_xref="CDD:184406"
     gene            270725..271195
                     /gene="smpB"
                     /locus_tag="CLC_0290"
                     /db_xref="GeneID:5400804"
                     /db_xref="Pathema:CLC_0290"
     CDS             270725..271195
                     /gene="smpB"
                     /locus_tag="CLC_0290"
                     /note="binds to ssrA RNA (tmRNA) and is required for its
                     successful binding to ribosomes; also appears to function
                     in the trans-translation step by promoting accommodation
                     of tmRNA into the ribosomal A site; SmpB protects the
                     tmRNA from RNase R degradation in Caulobacter crescentus;
                     both the tmRNA and SmpB are regulated in cell
                     cycle-dependent manner; functions in release of stalled
                     ribosomes from damaged mRNAs and targeting proteins for
                     degradation"
                     /codon_start=1
                     /transl_table=11
                     /product="SsrA-binding protein"
                     /protein_id="YP_001386190.1"
                     /db_xref="GI:153934929"
                     /db_xref="GeneID:5400804"
                     /db_xref="Pathema:CLC_0290"
                     /translation="MSKKKGSNTLAENRKARHDYFIEETYEAGIELVGTEVKSIRQGK
                     ANLKDSYAEIRNGEVFVRNMHISPYEQGNIYNKDPLRDRKLLLHKSEIYKLVGFTTQQ
                     GYTLIPLSLYLKHGRVKVSLAVAKGKKNYDKRDAMLEKAAKREMDRQIKERSRY"
     misc_feature    270761..271108
                     /gene="smpB"
                     /locus_tag="CLC_0290"
                     /note="Small protein B (SmpB) is a component of the
                     trans-translation system in prokaryotes for releasing
                     stalled ribosome from damaged messenger RNAs; Region:
                     SmpB; cd09294"
                     /db_xref="CDD:187755"
     misc_feature    order(270803..270820,270824..270829,270833..270838,
                     270845..270847,270896..270898,270980..270997,
                     271079..271081)
                     /gene="smpB"
                     /locus_tag="CLC_0290"
                     /note="SmpB-tmRNA interface; other site"
                     /db_xref="CDD:187755"
     gene            complement(271334..272497)
                     /locus_tag="CLC_0291"
                     /db_xref="GeneID:5398674"
                     /db_xref="Pathema:CLC_0291"
     CDS             complement(271334..272497)
                     /locus_tag="CLC_0291"
                     /note="identified by match to protein family HMM PF00375"
                     /codon_start=1
                     /transl_table=11
                     /product="sodium:dicarboxylate symporter family protein"
                     /protein_id="YP_001386191.1"
                     /db_xref="GI:153935855"
                     /db_xref="GeneID:5398674"
                     /db_xref="Pathema:CLC_0291"
                     /translation="MKKLFNNLIFKLVLGVIIGILIGSYASKPAIGVVITIKYILGQI
                     IFFAVPLIILGFITPSIAKLKQNASKFVGITVLIAYISSVAAAFLSMVAGYVLIPKLS
                     IASNPEGLKKLPELVFKLDIPPIMSVMSALALALLLGLATGWTNSDLIEKILDQFQNI
                     ILSIVNKVIIPILPFFIATNFAALAYEGSLSTQLPIFLKVIIIVLIGHFIWLTVLYLV
                     GGAISKENPWEVLKHYGPAYLTAVGTMSSAATLPVALKSAKKSKVLREDIVDFAIPLC
                     SNIHLCGSVLTEVFFVMTVSQILYGKLPAFSTMLLFILLLGIFAIGAPGVPGGTVMAS
                     LGLIISVLAFNEAGTALILTIFALQDSFGTACNVTGDGAIALMLTGIAKKKNL"
     misc_feature    complement(271364..272410)
                     /locus_tag="CLC_0291"
                     /note="Sodium:dicarboxylate symporter family; Region: SDF;
                     pfam00375"
                     /db_xref="CDD:215884"
     misc_feature    complement(271343..272368)
                     /locus_tag="CLC_0291"
                     /note="Na+/H+-dicarboxylate symporters [Energy production
                     and conversion]; Region: GltP; COG1301"
                     /db_xref="CDD:224220"
     gene            273313..273652
                     /locus_tag="CLC_0292"
                     /db_xref="GeneID:5400134"
                     /db_xref="Pathema:CLC_0292"
     misc_RNA        273313..273652
                     /locus_tag="CLC_0292"
                     /product="sRNA"
                     /db_xref="GeneID:5400134"
                     /db_xref="Pathema:CLC_0292"
     gene            274432..275763
                     /locus_tag="CLC_0293"
                     /db_xref="GeneID:5401184"
                     /db_xref="Pathema:CLC_0293"
     CDS             274432..275763
                     /locus_tag="CLC_0293"
                     /note="identified by match to protein family HMM PF01565;
                     match to protein family HMM PF08031"
                     /codon_start=1
                     /transl_table=11
                     /product="FAD-binding protein"
                     /protein_id="YP_001386192.1"
                     /db_xref="GI:153935558"
                     /db_xref="GeneID:5401184"
                     /db_xref="Pathema:CLC_0293"
                     /translation="MTKLTGRIVFPDDPSYDNARMDYNTRFSKYPCAIVFCQEIQDVI
                     NAVKWARKNCVPIHTRCGGHSYEAFSILNNGIVIDVSEMNKVLLEKENMEVTIEAGAT
                     LLPIYKILWDKGVTIPGGTCPTVGIAGITLGGGFGMLTRKMGMLCDSLMAVEMVNARG
                     KVVYADRCVNSDLFWASCGGGGGNFGIVTSFIFKVHPISNVAVYNITWDWSDAKEIIK
                     TWQDWAPFVDERLTSILEIFTEKDGRISSSGEFLGHEDQLRCLLRPLTSVGNPIQIEI
                     QTIPYIEAVIKFDGGPGPHKFKNTGAFVYHRLPDKAIDTLLCYMGISPNKDNSIQFQS
                     LGGAVRDILPDETAYFHREASYIMQYITHWKVDNEKNPNIFWVEKLRQAMLKYVNGTY
                     VNWPDIFIKDWPCAYYGTNYYELMRIKSKYDPENIFYFEQSIRPAKKRNYR"
     misc_feature    274501..275742
                     /locus_tag="CLC_0293"
                     /note="FAD/FMN-containing dehydrogenases [Energy
                     production and conversion]; Region: GlcD; COG0277"
                     /db_xref="CDD:223354"
     misc_feature    274522..274920
                     /locus_tag="CLC_0293"
                     /note="FAD binding domain; Region: FAD_binding_4;
                     pfam01565"
                     /db_xref="CDD:216574"
     misc_feature    275602..275736
                     /locus_tag="CLC_0293"
                     /note="Berberine and berberine like; Region: BBE;
                     pfam08031"
                     /db_xref="CDD:219706"
     gene            276442..276600
                     /locus_tag="CLC_0296"
                     /db_xref="GeneID:5401729"
                     /db_xref="Pathema:CLC_0296"
     CDS             276442..276600
                     /locus_tag="CLC_0296"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386194.1"
                     /db_xref="GI:153937185"
                     /db_xref="GeneID:5401729"
                     /db_xref="Pathema:CLC_0296"
                     /translation="MNDGTGSIPDTVPLGNANSSIRILGWLLPQGDTDEYPLTFCMAN
                     NPPKIQKL"
     gene            complement(276614..276763)
                     /locus_tag="CLC_0297"
                     /db_xref="GeneID:5398850"
                     /db_xref="Pathema:CLC_0297"
     CDS             complement(276614..276763)
                     /locus_tag="CLC_0297"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386195.1"
                     /db_xref="GI:153935155"
                     /db_xref="GeneID:5398850"
                     /db_xref="Pathema:CLC_0297"
                     /translation="MKADKTFNAIKYRKGRHMPALELELEYEDKPYEERQSKIHSKIY
                     LNHAA"
     gene            277738..279162
                     /locus_tag="CLC_0299"
                     /db_xref="GeneID:5400961"
                     /db_xref="Pathema:CLC_0299"
     CDS             277738..279162
                     /locus_tag="CLC_0299"
                     /note="identified by match to protein family HMM PF00282"
                     /codon_start=1
                     /transl_table=11
                     /product="amino acid decarboxylase"
                     /protein_id="YP_001386196.1"
                     /db_xref="GI:153936946"
                     /db_xref="GeneID:5400961"
                     /db_xref="Pathema:CLC_0299"
                     /translation="MDINLKNDLENIDILLEKVTINAFDFLKDINEIATFPKSTNAYT
                     LSQLNKDGLGGEKTLEEFMQRFYKGIVSCAGSKYFGFVTGGTTTAALMGDWLVSTFDQ
                     NATGRDTSSAAKLEEETINLLKQLLVLPETYSGTFVTGATMANFVGLAIGRQWLANEL
                     GVNIAIDGLYSIPPIRIVSSTPHSSILKALSMLGMGRKNMHYIPTIDGREAIDVEALE
                     SYLKKLNGEPCIVVANAGTVNTVDFDDLKQIGELKEKYNFFLHVDGAFGGFASCSIKY
                     KKLVEGIEAADSITIDAHKWLNVPYDSAMQFTKHPKLQIQVFQNNAVYLGELSDKPDF
                     VHLTPENSRRLRALPAWFTLKAYGQNGYQEIIERNCNLAQLLSKKIDESKNFSLLSTT
                     RLNVVCFTINLENDNVNLEQIQQFLNLVNKDGRAFFTQTVYKGIAGIRAAISNWRTEE
                     KDIEIAWEVLNKAYESYYETITVD"
     misc_feature    277864..279102
                     /locus_tag="CLC_0299"
                     /note="Glutamate decarboxylase and related PLP-dependent
                     proteins [Amino acid transport and metabolism]; Region:
                     GadB; COG0076"
                     /db_xref="CDD:223154"
     misc_feature    order(278158..278163,278170..278172,278437..278439,
                     278524..278526,278533..278535,278611..278613,
                     278620..278622)
                     /locus_tag="CLC_0299"
                     /note="pyridoxal 5'-phosphate binding pocket [chemical
                     binding]; other site"
                     /db_xref="CDD:99742"
     misc_feature    278620..278622
                     /locus_tag="CLC_0299"
                     /note="catalytic residue [active]"
                     /db_xref="CDD:99742"
     gene            279350..280201
                     /locus_tag="CLC_0300"
                     /db_xref="GeneID:5400869"
                     /db_xref="Pathema:CLC_0300"
     CDS             279350..280201
                     /locus_tag="CLC_0300"
                     /note="identified by match to protein family HMM PF00669;
                     match to protein family HMM PF00700"
                     /codon_start=1
                     /transl_table=11
                     /product="flagellin protein"
                     /protein_id="YP_001386197.1"
                     /db_xref="GI:153937683"
                     /db_xref="GeneID:5400869"
                     /db_xref="Pathema:CLC_0300"
                     /translation="MIINHNVNAMIAYRNIMINGALAGKAMERLASGMRINRASDDPA
                     GLAISEKMRAQIRGLEMASRNVQDGISMIQVAEGGVKEIQSMLQRMRELAVQAANGTN
                     SPEDRKNIQDEINQLTRGIDDIANGTEFNTIKILNANAADAGEVKLQIGANEGQFFGI
                     KLQNMNSAALGINGNTDKDGVDVSTSEKASAAIKVFDDAINKTSSFMSSLGASSNMLE
                     HRINYLENTIGNLTEAESRIRDADMAKEMMNYTKYSVLQQVAQAIFSQVLKQQESTIQ
                     LLKSLNN"
     misc_feature    279350..280186
                     /locus_tag="CLC_0300"
                     /note="flagellin; Provisional; Region: PRK12804"
                     /db_xref="CDD:183759"
     misc_feature    279356..279757
                     /locus_tag="CLC_0300"
                     /note="Bacterial flagellin N-terminal helical region;
                     Region: Flagellin_N; pfam00669"
                     /db_xref="CDD:216053"
     misc_feature    279926..280183
                     /locus_tag="CLC_0300"
                     /note="Bacterial flagellin C-terminal helical region;
                     Region: Flagellin_C; pfam00700"
                     /db_xref="CDD:144340"
     gene            280560..282179
                     /locus_tag="CLC_0301"
                     /db_xref="GeneID:5401707"
                     /db_xref="Pathema:CLC_0301"
     CDS             280560..282179
                     /locus_tag="CLC_0301"
                     /note="identified by match to protein family HMM PF01569"
                     /codon_start=1
                     /transl_table=11
                     /product="vanadium-dependent haloperoxidase"
                     /protein_id="YP_001386198.1"
                     /db_xref="GI:153937341"
                     /db_xref="GeneID:5401707"
                     /db_xref="Pathema:CLC_0301"
                     /translation="MEEKQDKNIEKYESEDKVCITKPSCPKYNTIINQCEIGPLTPEQ
                     RRSEAFEKRSQSASFQKDLILQGQRCNDDEILYVNKIGNNTKALPHNVLGEVNLEAYN
                     ILISALTTGNPEKFELIPLGGTRKFSDPQAAYAYEMVGPDSHHLTIAPAPSFSSAIEA
                     SEMAEDYWMALTRDVPFVDYDTSPETKTAAEDLSKFSAYDGPKCKGKVTTETLFRSNV
                     PDTLEGPYVSQFLLKDIPFGAKTITQKYTVPVEKINYMTSYNEWLNIQNGQAPSSILK
                     LDPVPRYISNGRDLGEYVHKDSSIQATLMACSILLGFGQEALSLSNPYLFSKTQEGFA
                     TFGSPHVLDFATRASRMSLEAAWFQKFLVHRRLRPEEFGGCVQNLKTGDAKYPINPEL
                     LDSKVLEIVFKKYGTYLLPMAYTEGCPTHPAYPAGHATHIGAGVTILKAFFNEDYIIP
                     NPVVASADGLDLQPYLEGDLKVGGELNKLATNIALGRDFAGVHWRSDCLEGMKLGEAV
                     AIGLLQDYRNTYNEELRGFSFTKFDGTKVII"
     misc_feature    <281547..282101
                     /locus_tag="CLC_0301"
                     /note="PAP2, haloperoxidase_like subfamily.
                     Haloperoxidases catalyze the oxidation of halides such as
                     bromide or chloride by hydrogen peroxide, which results in
                     subsequent halogenation of organic substrates, or
                     halide-assisted disproportionation of hydrogen...; Region:
                     PAP2_haloperoxidase; cd03398"
                     /db_xref="CDD:239492"
     misc_feature    order(281637..281639,281661..281663,281835..281843,
                     282018..282020,282036..282038,282048..282050)
                     /locus_tag="CLC_0301"
                     /note="active site"
                     /db_xref="CDD:239492"
     gene            282563..283222
                     /locus_tag="CLC_0302"
                     /db_xref="GeneID:5399672"
                     /db_xref="Pathema:CLC_0302"
     CDS             282563..283222
                     /locus_tag="CLC_0302"
                     /note="identified by match to protein family HMM PF07883"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386199.1"
                     /db_xref="GI:153935913"
                     /db_xref="GeneID:5399672"
                     /db_xref="Pathema:CLC_0302"
                     /translation="MYNTYMMYPCSYCANIPMYNSYGMYSPYDTYSCPCFVDTPRSYN
                     DSDFSMQRSNRYIPFTDEFEYGSRFGSPQSANSNSPIELKDYGPQPFVVNINEATKRN
                     NTFRTALWTGTHLQVTLMSINVGDDIGLEMHPNVDQFIRIEEGQGLVKMGSSKDRLNF
                     RAKAYDDFAIMIPAGTWHNIINTGNRPLKVYSIYAPPQHPHGTVHVTKADAEAAEESH
                     H"
     misc_feature    282827..283198
                     /locus_tag="CLC_0302"
                     /note="Mannose-6-phosphate isomerase [Carbohydrate
                     transport and metabolism]; Region: {ManC}; COG0662"
                     /db_xref="CDD:223734"
     gene            283563..284672
                     /locus_tag="CLC_0303"
                     /db_xref="GeneID:5400501"
                     /db_xref="Pathema:CLC_0303"
     CDS             283563..284672
                     /locus_tag="CLC_0303"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386200.1"
                     /db_xref="GI:153934995"
                     /db_xref="GeneID:5400501"
                     /db_xref="Pathema:CLC_0303"
                     /translation="MINIIKTAIITIIISFISGLLLDRYKNLAPRILCNIGKGIPIEI
                     NNKKFNAYIITVRNVSSKIIHDITLHVQNGQSNLKITDAKITKGLKFDSSIEDNILDV
                     CIPFLSKDDEFSVTVYVENQHGVHNKPAVIIRSPEKFKEVNSEERKGIFSIFTNIPKN
                     IKEIVSDATKKDETINERNREITNKNNKLGKNKKIMIMAASVALVVIVGGVARFYFKG
                     KPADTNTKTPSVETKVLKQSKDSKGSTDKTTKGTDVKSSTDGKTKNTDGNSSTGGSSN
                     NTDKKPSTGGTNGNTNKKPSTGDTNKSPSTSDTTGNKDGDSSKDGTTNGKTDGDSSNS
                     GTTNDGDKNPSTGGGTTGNTDEKPSTDGTKGDTGN"
     gene            285174..286346
                     /locus_tag="CLC_0304"
                     /db_xref="GeneID:5399838"
                     /db_xref="Pathema:CLC_0304"
     CDS             285174..286346
                     /locus_tag="CLC_0304"
                     /note="identified by match to protein family HMM PF00390;
                     match to protein family HMM PF01262; match to protein
                     family HMM PF03949"
                     /codon_start=1
                     /transl_table=11
                     /product="malic enzyme"
                     /protein_id="YP_001386201.1"
                     /db_xref="GI:153937723"
                     /db_xref="GeneID:5399838"
                     /db_xref="Pathema:CLC_0304"
                     /translation="MNYFEESLKLHEDNRGKIEIKSKMEVKTRDDLSLAYTPGVAEPC
                     RKIHENEENVYKYTSKGNMVAVVTDGTAVLGLGDIGPKAGLPVMEGKALLFKEFANVD
                     AFPICLDTKDVDEIVKTVKLIAPGFGGINLEDIGAPRCFEIEEKLKKELDIPVFHDDQ
                     HGTAIVVLAGVINALKVVNKKIEDVKVVVNGAGAAGTAITKLLLSLGVKNLIVCDKVG
                     ILYEGIENVDDAKKELSKVTNPENIKGTLADALIGADVFIGVSAPGIVSKDMVETMNK
                     DSIIFAMANPTPEIMPDLAKEAGAKVIGTGRSDFPNQVNNVLAFPGIFKGALDVRAKE
                     INEEMKIAAAYAIASMIKDKDLNEDNVIPYALDRSVADNVAKAIKEAARKSGVARV"
     misc_feature    285174..286343
                     /locus_tag="CLC_0304"
                     /note="Malic enzyme [Energy production and conversion];
                     Region: SfcA; COG0281"
                     /db_xref="CDD:223358"
     misc_feature    285219..285602
                     /locus_tag="CLC_0304"
                     /note="Malic enzyme, N-terminal domain; Region: malic;
                     pfam00390"
                     /db_xref="CDD:215894"
     misc_feature    285651..286319
                     /locus_tag="CLC_0304"
                     /note="NAD(P) binding domain of malic enzyme (ME),
                     subgroup 2; Region: NAD_bind_2_malic_enz; cd05311"
                     /db_xref="CDD:133453"
     misc_feature    order(285747..285758,285816..285821,285951..285956,
                     285966..285968,286020..286028,286089..286091,
                     286113..286115,286119..286121)
                     /locus_tag="CLC_0304"
                     /note="putative NAD(P) binding site [chemical binding];
                     other site"
                     /db_xref="CDD:133453"
     gene            286558..287532
                     /gene="kdgT"
                     /locus_tag="CLC_0305"
                     /db_xref="GeneID:5401689"
                     /db_xref="Pathema:CLC_0305"
     CDS             286558..287532
                     /gene="kdgT"
                     /locus_tag="CLC_0305"
                     /note="transports degraded pectin products into the
                     bacterial cell"
                     /codon_start=1
                     /transl_table=11
                     /product="2-keto-3-deoxygluconate permease"
                     /protein_id="YP_001386202.1"
                     /db_xref="GI:153936944"
                     /db_xref="GeneID:5401689"
                     /db_xref="Pathema:CLC_0305"
                     /translation="MQIPIKKTLDKIPGGMMVVPLFLGVLVNTFFPQFLQIGGFTTAL
                     FSAKASSTILACFMFLIGSQINFKLAPKAIKKGAILIAGKFIVGAGIGIFVGKVFGPA
                     GVLGLSPLAILSALTNCNGGLYASLASQYGDETDVGAYALLSLKDGPFFTLVALGASG
                     LAQVPIMALVAVMIPIVIGMILGNLDPDMRKFLGSSKMLLIPFFSFPLGAGMNLETIV
                     KAGGPGILLGIIAAFTGIGAYVLLKLFKEEPIIGLATGSTAGNAVATPAAVAAADPTL
                     AVVATVATAQVAAACVISAILCPFIVSYVFGRLNKNKMKKLNNEATAG"
     misc_feature    286558..287481
                     /gene="kdgT"
                     /locus_tag="CLC_0305"
                     /note="2-keto-3-deoxygluconate permease; Provisional;
                     Region: PRK05274"
                     /db_xref="CDD:235384"
     gene            287746..289368
                     /locus_tag="CLC_0306"
                     /db_xref="GeneID:5398832"
                     /db_xref="Pathema:CLC_0306"
     CDS             287746..289368
                     /locus_tag="CLC_0306"
                     /note="identified by match to protein family HMM PF02518"
                     /codon_start=1
                     /transl_table=11
                     /product="sensor histidine kinase"
                     /protein_id="YP_001386203.1"
                     /db_xref="GI:153935941"
                     /db_xref="GeneID:5398832"
                     /db_xref="Pathema:CLC_0306"
                     /translation="MRKAMKLQTKITLLIITVVFLSIAIIISFVVSWMTGNIENKAKT
                     NIMNVAEMVAHSTQIVDALEEKDPNGKIGPYINMQLKNLQQIQYIIVADNDGIRYSHP
                     NPKMIKKKFEGGDEYKVVKEGETYISEATGTLGKSMRAFAPIYDRENKKEIGFVSVGT
                     LNENIETAKHIAILYIILIGFGGLMAGTIGAILLSNNIKNILLGLEPEEITNLYNEKM
                     GILDTIHEGLVAVDYMGRITLINNSALKILNLQHKVDKDEVIGKNIENIIENTGMINI
                     LQTGESEFEREQKINNTTIMTNRIPIMKREKIVGAIASFRDKTEVTRMAEELTGAKKM
                     AWSLRAQNHEFMNKLHTISGLIQLEEYDEALQFISDMAKSRNSISNILSHNIKNPSIS
                     ALLLSKYNKAEECRVSLKIDENCKLTKLPQHMTSEEIVSIIGNLIENSLDEVKNDGTG
                     LIYIKIVENKNYLNIIVKDNGSGIPVEYREKIYHQGFSTKEAQRGYGMYIVKKIIDET
                     KGTIRLDVDNGVIWNITIPMTRGDKIDSGNDS"
     misc_feature    287746..289335
                     /locus_tag="CLC_0306"
                     /note="Signal transduction histidine kinase regulating
                     citrate/malate metabolism [Signal transduction
                     mechanisms]; Region: CitA; COG3290"
                     /db_xref="CDD:225827"
     misc_feature    288403..>288549
                     /locus_tag="CLC_0306"
                     /note="PAS domain; Region: PAS; smart00091"
                     /db_xref="CDD:214512"
     misc_feature    289030..289302
                     /locus_tag="CLC_0306"
                     /note="Histidine kinase-like ATPases; This family includes
                     several ATP-binding proteins for example: histidine
                     kinase, DNA gyrase B, topoisomerases, heat shock protein
                     HSP90, phytochrome-like ATPases and DNA mismatch repair
                     proteins; Region: HATPase_c; cd00075"
                     /db_xref="CDD:238030"
     misc_feature    order(289048..289050,289060..289062,289069..289071,
                     289144..289146,289150..289152,289156..289158,
                     289162..289167,289228..289239,289285..289287,
                     289291..289293)
                     /locus_tag="CLC_0306"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    289060..289062
                     /locus_tag="CLC_0306"
                     /note="Mg2+ binding site [ion binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    order(289156..289158,289162..289164,289228..289230,
                     289234..289236)
                     /locus_tag="CLC_0306"
                     /note="G-X-G motif; other site"
                     /db_xref="CDD:238030"
     gene            289346..290020
                     /locus_tag="CLC_0307"
                     /db_xref="GeneID:5398571"
                     /db_xref="Pathema:CLC_0307"
     CDS             289346..290020
                     /locus_tag="CLC_0307"
                     /note="identified by match to protein family HMM PF00072"
                     /codon_start=1
                     /transl_table=11
                     /product="response regulator"
                     /protein_id="YP_001386204.1"
                     /db_xref="GI:153934977"
                     /db_xref="GeneID:5398571"
                     /db_xref="Pathema:CLC_0307"
                     /translation="MIQVMIVEDDPMVREINSKFLKRVEGFVLYKAVSNLYDAKKFIA
                     MKKPDLILLDVYLPKENGIDLLKWIRKQDIDIDIILITADKSIERIQEAFRSGVVDYL
                     IKPFNFERFKESLIQFKGRYYEFKKNNVIEQKDLDKIICSSNISQNEDDFAKGLNKYT
                     YKSIWNEIEKSNDKDFTAEYLAEKLGIARVTVRRYLEYMEKENKVYKLVEYGKVGRPQ
                     HKYHKI"
     misc_feature    289349..290014
                     /locus_tag="CLC_0307"
                     /note="Response regulator of citrate/malate metabolism
                     [Transcription / Signal transduction mechanisms]; Region:
                     CitB; COG4565"
                     /db_xref="CDD:226931"
     misc_feature    289358..289690
                     /locus_tag="CLC_0307"
                     /note="Signal receiver domain; originally thought to be
                     unique to bacteria (CheY, OmpR, NtrC, and PhoB), now
                     recently identified in eukaroytes ETR1 Arabidopsis
                     thaliana; this domain receives the signal from the sensor
                     partner in a two-component systems; Region: REC; cd00156"
                     /db_xref="CDD:238088"
     misc_feature    order(289367..289372,289505..289507,289529..289531,
                     289589..289591,289646..289648,289655..289660)
                     /locus_tag="CLC_0307"
                     /note="active site"
                     /db_xref="CDD:238088"
     misc_feature    289505..289507
                     /locus_tag="CLC_0307"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:238088"
     misc_feature    order(289514..289519,289523..289531)
                     /locus_tag="CLC_0307"
                     /note="intermolecular recognition site; other site"
                     /db_xref="CDD:238088"
     misc_feature    289655..289663
                     /locus_tag="CLC_0307"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238088"
     misc_feature    289853..>289948
                     /locus_tag="CLC_0307"
                     /note="HTH domain; Region: HTH_11; cl17392"
                     /db_xref="CDD:247946"
     gene            290577..292040
                     /gene="lysP"
                     /locus_tag="CLC_0308"
                     /db_xref="GeneID:5400618"
                     /db_xref="Pathema:CLC_0308"
     CDS             290577..292040
                     /gene="lysP"
                     /locus_tag="CLC_0308"
                     /note="identified by match to protein family HMM PF00324"
                     /codon_start=1
                     /transl_table=11
                     /product="lysine-specific permease"
                     /protein_id="YP_001386205.1"
                     /db_xref="GI:153936614"
                     /db_xref="GeneID:5400618"
                     /db_xref="Pathema:CLC_0308"
                     /translation="MSTTKEKDSNSHNLKRSLQARHLNMIAMGGAIGTGIFLALGATI
                     KQAGPGGALTAYACIGVMVYFLMTSLGEMATFMPVSGSFETYASRFIDPAFGFALGWN
                     YWYNWAITVAAEMVAGALIMKFWFPNVPAIIWSVLFLVLIVSLNLLSTKAYGESEYWF
                     AGIKVFTVIVFLLIGIATILGILGGHTVGLQNFTIKDAPFVGGVKSIFMVFLIAGFSF
                     QGTELVGIAAGESENPKKTIPKAINTIFWRIIVFYLGTIFVVSAIIPYTDAGVNTSPF
                     TLVFERAGIAADASLMNAVILTSVISCGNSGMYASSRMLYAMAKEGKAPSWLGKLNSR
                     GVPVNALALTTLVASACFLTGLYAETTVYVWLVAASGLAGFIAWVGIALCHYRFRKAY
                     VAQGRDLNKLVYKAKLFPLGPIIALVLCIIVILGQGISYFEATKIDWNGIIASYIGLP
                     IFFGLWFSYKKKHKTKVVNLQEISFDVEDTHLKTEIV"
     misc_feature    290595..292001
                     /gene="lysP"
                     /locus_tag="CLC_0308"
                     /note="lysine transporter; Provisional; Region: PRK10836"
                     /db_xref="CDD:182767"
     gene            292584..293318
                     /locus_tag="CLC_0309"
                     /db_xref="GeneID:5401227"
                     /db_xref="Pathema:CLC_0309"
     CDS             292584..293318
                     /locus_tag="CLC_0309"
                     /note="identified by match to protein family HMM PF00753"
                     /codon_start=1
                     /transl_table=11
                     /product="metallo-beta-lactamase"
                     /protein_id="YP_001386206.1"
                     /db_xref="GI:153935426"
                     /db_xref="GeneID:5401227"
                     /db_xref="Pathema:CLC_0309"
                     /translation="MTLTKVTDRIYFLENDKEADRALIGYIKGDKYSLMVDAGNSKNH
                     VEKFNNSIEKLNLRLPDYVAITHWHWDHTYGMNAVTGKTIACEITNERLKIMSKWQWT
                     DEAMKQRLLTGEDIEFADTNIRKEYKNLEDIKVTHADVVFKNDLEINLGGLKVILKNV
                     VAPHSEDSVIVYVPEERVVFIGDAYSIDFYNNYKYDLAKLQSFINMLESLEFDICFLG
                     HSSPLKKADIIEYLKSQYKKISISNN"
     misc_feature    292659..293240
                     /locus_tag="CLC_0309"
                     /note="Metallo-beta-lactamase superfamily; Region:
                     Lactamase_B; smart00849"
                     /db_xref="CDD:214854"
     gene            293432..293944
                     /locus_tag="CLC_0310"
                     /db_xref="GeneID:5400017"
                     /db_xref="Pathema:CLC_0310"
     CDS             293432..293944
                     /locus_tag="CLC_0310"
                     /note="identified by match to protein family HMM PF00583"
                     /codon_start=1
                     /transl_table=11
                     /product="acetyltransferase"
                     /protein_id="YP_001386207.1"
                     /db_xref="GI:153934512"
                     /db_xref="GeneID:5400017"
                     /db_xref="Pathema:CLC_0310"
                     /translation="MDKGVDMEQYIFELAQYGDIKDILSLIKLRIKWMDEKGIEQWNK
                     TDYLNCYPSEYFQNCIFKKELYVLKVKENKTIVGAVALHTYDSRWKDKDSSYYVHNLV
                     TSVNACCAGIVLINNCELVAKNNNKRYLRLDCQASNIKLNRYYERLGFGYVGIIKDGL
                     YVGNKREKII"
     misc_feature    293639..293881
                     /locus_tag="CLC_0310"
                     /note="Acetyltransferase (GNAT) family; Region:
                     Acetyltransf_1; pfam00583"
                     /db_xref="CDD:216007"
     gene            293970..294347
                     /locus_tag="CLC_0311"
                     /db_xref="GeneID:5401411"
                     /db_xref="Pathema:CLC_0311"
     CDS             293970..294347
                     /locus_tag="CLC_0311"
                     /note="identified by match to protein family HMM PF00383"
                     /codon_start=1
                     /transl_table=11
                     /product="cytidine/deoxycytidylate deaminase"
                     /protein_id="YP_001386208.1"
                     /db_xref="GI:153937147"
                     /db_xref="GeneID:5401411"
                     /db_xref="Pathema:CLC_0311"
                     /translation="MKFDELYDIAKNALNPRKISKNSYAGSVAAAILSESGKVYTGVC
                     IDTPCSMGFCAEHAAIAAMITAGENRITKVVAVYEDGTIIPPCGRCREFICQIHDENY
                     KCQVMIKKDMIITINDLLPYRWE"
     misc_feature    294051..>294251
                     /locus_tag="CLC_0311"
                     /note="Cytidine deaminase zinc-binding domain. These
                     enzymes are Zn dependent. The zinc ion in the active site
                     plays a central role in the proposed catalytic mechanism,
                     activating a water molecule to form a hydroxide ion that
                     performs a nucleophilic attack on...; Region:
                     cytidine_deaminase; cd01283"
                     /db_xref="CDD:238610"
     misc_feature    order(294051..294053,294099..294101,294105..294107,
                     294129..294137,294228..294230,294237..294239)
                     /locus_tag="CLC_0311"
                     /note="active site"
                     /db_xref="CDD:238610"
     misc_feature    order(294129..294137,294225..294230,294237..294239)
                     /locus_tag="CLC_0311"
                     /note="catalytic motif [active]"
                     /db_xref="CDD:238610"
     misc_feature    order(294129..294131,294135..294137,294228..294230,
                     294237..294239)
                     /locus_tag="CLC_0311"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:238610"
     gene            294506..295408
                     /locus_tag="CLC_0312"
                     /db_xref="GeneID:5399876"
                     /db_xref="Pathema:CLC_0312"
     CDS             294506..295408
                     /locus_tag="CLC_0312"
                     /note="identified by match to protein family HMM PF00583"
                     /codon_start=1
                     /transl_table=11
                     /product="acetyltransferase"
                     /protein_id="YP_001386209.1"
                     /db_xref="GI:153936620"
                     /db_xref="GeneID:5399876"
                     /db_xref="Pathema:CLC_0312"
                     /translation="MSEFLLINDKKYSYACNYRDDSILRNSFNTLTEKTYGFNFKQWY
                     EDGYWGDKYIPYSLLDGDNVVSNVSVNIIDFLILGEEKRYVQIGTVMTDEEYRGQGLC
                     RALMERVIKEWEDKCDLIYLFANDSVLDFYPKFGFDKCDEYQYAINKIKKKKPGKIRK
                     MSMDNERDREFVYNMACNTISLSKLSMKNNASLIMFYCTSFMKDNIYYLEDYDTVAIC
                     DFDEDILYVQDVFAKKEVNLDNIINVMMKYETKKVILGFTPNNSSSNEKILINEDDTT
                     LFIKMGKDSPFKTRDLMFPVLSHA"
     misc_feature    294722..294871
                     /locus_tag="CLC_0312"
                     /note="N-Acyltransferase superfamily: Various enzymes that
                     characteristically catalyze the transfer of an acyl group
                     to a substrate; Region: NAT_SF; cd04301"
                     /db_xref="CDD:173926"
     misc_feature    order(294773..294781,294809..294814)
                     /locus_tag="CLC_0312"
                     /note="Coenzyme A binding pocket [chemical binding]; other
                     site"
                     /db_xref="CDD:173926"
     gene            295434..295958
                     /locus_tag="CLC_0313"
                     /db_xref="GeneID:5400377"
                     /db_xref="Pathema:CLC_0313"
     CDS             295434..295958
                     /locus_tag="CLC_0313"
                     /note="identified by match to protein family HMM PF01872"
                     /codon_start=1
                     /transl_table=11
                     /product="riboflavin biosynthesis protein RibD
                     domain-containing protein"
                     /protein_id="YP_001386210.1"
                     /db_xref="GI:153937613"
                     /db_xref="GeneID:5400377"
                     /db_xref="Pathema:CLC_0313"
                     /translation="MKRKIILNLAMSIDGYIASKDGGFDWIVGDGDEKLDTKDKWDYD
                     KFLNDVDTVVMGKNCYDQSFHNDFADKKVYVATSQKLQNYGNIHFINGDICKVIEEEK
                     EKKGKDIFLFGGGGLADNFIKSNIIDEYIIGIIPTILGKGRPLFLENNPKIDLHLDQY
                     IMDKGVVILRYSKR"
     misc_feature    295440..295871
                     /locus_tag="CLC_0313"
                     /note="RibD C-terminal domain; Region: RibD_C; cl17279"
                     /db_xref="CDD:247833"
     misc_feature    295443..295871
                     /locus_tag="CLC_0313"
                     /note="Dihydrofolate reductase [Coenzyme metabolism];
                     Region: FolA; COG0262"
                     /db_xref="CDD:223340"
     gene            296021..296950
                     /locus_tag="CLC_0314"
                     /db_xref="GeneID:5400864"
                     /db_xref="Pathema:CLC_0314"
     CDS             296021..296950
                     /locus_tag="CLC_0314"
                     /note="3'-5' exonuclease of DNA polymerase III"
                     /codon_start=1
                     /transl_table=11
                     /product="DNA polymerase III subunit epsilon"
                     /protein_id="YP_001386211.1"
                     /db_xref="GI:153935123"
                     /db_xref="GeneID:5400864"
                     /db_xref="Pathema:CLC_0314"
                     /translation="MNFVAIDFETANEKRNSPCSIGIVVVKDGEIVEKVHYLIKPKEM
                     RFMPINIGIHGIRPHMVQDELEFDKIWGKIKGYFNNNLVIAHNASFDMSVLRSTLKLY
                     NIKMPSFEYICTMKLSKNFYSNIDNARLNTVNNFLGYKFKYHDALADAMACSNILINI
                     SKELNSKDINEISKLIGVTLGYVNEDGCKPSSIKGRILKRSNRQAPRENKKIIESFNF
                     TAFKEEVVVFTGGLASMTRNEAMILVGKLNGTVGSSVTKKTTYLVTNTKDIEDLNREE
                     MSNKLKKAIDLKKKGQNIKFLNEEAFLQKCKEK"
     misc_feature    296021..296947
                     /locus_tag="CLC_0314"
                     /note="DNA polymerase III subunit epsilon; Validated;
                     Region: PRK06195"
                     /db_xref="CDD:235735"
     misc_feature    296027..296494
                     /locus_tag="CLC_0314"
                     /note="an uncharacterized bacterial subgroup of the DEDDh
                     3'-5' exonuclease domain family with similarity to the
                     epsilon subunit of DNA polymerase III; Region:
                     DNA_pol_III_epsilon_like; cd06130"
                     /db_xref="CDD:99834"
     misc_feature    order(296039..296050,296054..296056,296276..296281,
                     296285..296293,296450..296452,296465..296467)
                     /locus_tag="CLC_0314"
                     /note="active site"
                     /db_xref="CDD:99834"
     misc_feature    order(296039..296050,296054..296056,296276..296281,
                     296285..296290,296450..296452,296465..296467)
                     /locus_tag="CLC_0314"
                     /note="substrate binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:99834"
     misc_feature    order(296039..296041,296045..296047,296291..296293,
                     296450..296452,296465..296467)
                     /locus_tag="CLC_0314"
                     /note="catalytic site [active]"
                     /db_xref="CDD:99834"
     misc_feature    296693..>296818
                     /locus_tag="CLC_0314"
                     /note="Breast Cancer Suppressor Protein (BRCA1),
                     carboxy-terminal domain. The BRCT domain is found within
                     many DNA damage repair and cell cycle checkpoint proteins.
                     The unique diversity of this domain superfamily allows
                     BRCT modules to interact forming homo...; Region: BRCT;
                     cd00027"
                     /db_xref="CDD:237994"
     misc_feature    order(296732..296734,296744..296746,296753..296755,
                     296762..296764,296768..296770)
                     /locus_tag="CLC_0314"
                     /note="Dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:237994"
     gene            complement(297451..298125)
                     /locus_tag="CLC_0316"
                     /db_xref="GeneID:5399032"
                     /db_xref="Pathema:CLC_0316"
     CDS             complement(297451..298125)
                     /locus_tag="CLC_0316"
                     /note="identified by match to protein family HMM PF00857"
                     /codon_start=1
                     /transl_table=11
                     /product="isochorismate family protein"
                     /protein_id="YP_001386213.1"
                     /db_xref="GI:153935443"
                     /db_xref="GeneID:5399032"
                     /db_xref="Pathema:CLC_0316"
                     /translation="MIYFCPIYGNWVEYSSDDNLDYSGYWPPRNIRAEVTNQTIIDKW
                     NTVSPPPAPELKSVAVDPKTSALLILDMEASICKSSRCIASIPNIHNLLTKARKNNML
                     VVYSLTHVGNPRDIFKQLALLPGDPIVKSNVDKFYKTNLEKILQEKGIKTVVVTGYAA
                     NGAVLHTGTSAAFRGYNVIIPVDCMSANNLYGEQYTAWHMLNSPGTRNRAVLTKADLI
                     SFYHDN"
     misc_feature    complement(297511..297933)
                     /locus_tag="CLC_0316"
                     /note="Isochorismatase family; Region: Isochorismatase;
                     pfam00857"
                     /db_xref="CDD:216156"
     misc_feature    complement(297526..297930)
                     /locus_tag="CLC_0316"
                     /note="Cysteine hydrolases; This family contains
                     amidohydrolases, like CSHase (N-carbamoylsarcosine
                     amidohydrolase), involved in creatine metabolism and
                     nicotinamidase, converting nicotinamide to nicotinic acid
                     and ammonia in the pyridine nucleotide cycle. It...;
                     Region: cysteine_hydrolases; cd00431"
                     /db_xref="CDD:238245"
     misc_feature    complement(order(297637..297639,297736..297738,
                     297913..297915))
                     /locus_tag="CLC_0316"
                     /note="catalytic triad [active]"
                     /db_xref="CDD:238245"
     misc_feature    complement(297649..297654)
                     /locus_tag="CLC_0316"
                     /note="conserved cis-peptide bond; other site"
                     /db_xref="CDD:238245"
     gene            298552..300882
                     /locus_tag="CLC_0317"
                     /db_xref="GeneID:5400814"
                     /db_xref="Pathema:CLC_0317"
     CDS             298552..300882
                     /locus_tag="CLC_0317"
                     /note="identified by match to protein family HMM PF01315;
                     match to protein family HMM PF02738"
                     /codon_start=1
                     /transl_table=11
                     /product="xanthine dehydrogenase, molybdopterin-binding
                     subunit"
                     /protein_id="YP_001386214.1"
                     /db_xref="GI:153936861"
                     /db_xref="GeneID:5400814"
                     /db_xref="Pathema:CLC_0317"
                     /translation="MYDLNIIGKNVPRKESIDKVTGAAKYTNDYEATGLLYARMVTSP
                     YAHAKIKAIEYENSLKTSGVRAVITGEYFPQLVGSTIVDRPPIAIDKVRYNGEPVAVV
                     VADSEIEAKKAAQMIKIEYEPLPVVNSPSEAIKKDSPLVHEKLGDYEIIDEVFPEPNT
                     NIANRTKIRKGDIKKGWHESEVTVEASFSFPPSDHAAMETRSVTARILPDGRVIIYSC
                     SQAPFAIKKLISHFFNIDPGKVIVHVPLVGGAYGGKTAVQLEFIAYLCSKAVGGRQVK
                     LTNTREEDFITSPVHIGLDAKIKLGSTKAGRLTATEITYLFDGGSYSDRAVIISRAAG
                     IDCTGPYNIENVWCDSLCMYTNHPYAAAFRGFGHPELTFVIERSMDILADKLGMDPLE
                     LRLRNAILPGDTSATQILLNKSNLGNLPQCIQKLIELINWGEVDEAETEDGKVRAKGV
                     SCFWKNSNTSLNAGGGAVLTFNLDGSINLICAAVEIGQGIKTALAQILAEKMKMDVDQ
                     IHVTMEVNTKTNPEHWKTAASRTTLLVGRAVLRAAEDAINQLCDIAAVVLGRSPVELE
                     VGRGRVFLKDNPQIGIEISKIAFGYILPNGNSIGAQVIGRGSYAFNNLTTLDPKTGKG
                     NPGPEWTVGAAAVEIELDKKEYTYKIIKAACVIDAGKVINAGGARGQISGGMNLGLSF
                     ASREAFLFTNKGIVRNKQLRTYNIMRLGENPEYLVDFVETPNLDGPYGARGIGEYGVI
                     GMPAALGNSLSCAAEVPLNQLPLIPEFIWKVKEGGH"
     misc_feature    298558..300873
                     /locus_tag="CLC_0317"
                     /note="Aerobic-type carbon monoxide dehydrogenase, large
                     subunit CoxL/CutL homologs [Energy production and
                     conversion]; Region: CoxL; COG1529"
                     /db_xref="CDD:224446"
     misc_feature    298612..298926
                     /locus_tag="CLC_0317"
                     /note="Aldehyde oxidase and xanthine dehydrogenase, a/b
                     hammerhead domain; Region: Ald_Xan_dh_C; smart01008"
                     /db_xref="CDD:214971"
     misc_feature    299032..300669
                     /locus_tag="CLC_0317"
                     /note="Molybdopterin-binding domain of aldehyde
                     dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738"
                     /db_xref="CDD:217210"
     gene            300882..301721
                     /locus_tag="CLC_0318"
                     /db_xref="GeneID:5400778"
                     /db_xref="Pathema:CLC_0318"
     CDS             300882..301721
                     /locus_tag="CLC_0318"
                     /note="identified by match to protein family HMM PF00941"
                     /codon_start=1
                     /transl_table=11
                     /product="xanthine dehydrogenase, FAD-binding subunit"
                     /protein_id="YP_001386215.1"
                     /db_xref="GI:153937386"
                     /db_xref="GeneID:5400778"
                     /db_xref="Pathema:CLC_0318"
                     /translation="MIAFNFEYYKPDSLDEAVKMYKELSKSGKEPLYYSGGTEIITMA
                     RRNDLVTKAVIDTKGIPECNVFEIKGNQLIIGAAVTLNHIAENKLIPFLSETADFPAD
                     HTSRNKITVGGNICGKIIYKEAVLGHLIGDSSVSIYGKKGKRILPIIQAFNQKLQLKK
                     GEFLFQLSTEISYSNLPYISVKKTKQGKMEYPLISMAALKKNNNIQMAFSGVCSFPFR
                     SMEMEKYINNKTLTKEQRIEQAISHLPAPILGNIQGSSEYKRFVLRNLLEYTLEILDG
                     ERR"
     misc_feature    300894..301712
                     /locus_tag="CLC_0318"
                     /note="Aerobic-type carbon monoxide dehydrogenase, middle
                     subunit CoxM/CutM homologs [Energy production and
                     conversion]; Region: CoxM; COG1319"
                     /db_xref="CDD:224238"
     misc_feature    301425..301697
                     /locus_tag="CLC_0318"
                     /note="CO dehydrogenase flavoprotein C-terminal domain;
                     Region: CO_deh_flav_C; smart01092"
                     /db_xref="CDD:215021"
     gene            301718..302191
                     /locus_tag="CLC_0319"
                     /db_xref="GeneID:5401559"
                     /db_xref="Pathema:CLC_0319"
     CDS             301718..302191
                     /locus_tag="CLC_0319"
                     /note="identified by match to protein family HMM PF00111;
                     match to protein family HMM PF01799"
                     /codon_start=1
                     /transl_table=11
                     /product="xanthine dehydrogenase, iron-sulfur-binding
                     subunit"
                     /protein_id="YP_001386216.1"
                     /db_xref="GI:153934497"
                     /db_xref="GeneID:5401559"
                     /db_xref="Pathema:CLC_0319"
                     /translation="MISYIEETKIELDINGEKRSVIVRPADTLLRVLREKLGLTGGKP
                     GCENGDCGACTVLLDGIPIKSCIILAVEAVGHKLITIEGLKEEPIQKAFIEKMGFQCG
                     YCTPGFIMNCYGLIKNNPYADDETIEKWLQSNICRCTGYEEIRDAVKSVLFSNKK"
     misc_feature    301739..302173
                     /locus_tag="CLC_0319"
                     /note="Aerobic-type carbon monoxide dehydrogenase, small
                     subunit CoxS/CutS homologs [Energy production and
                     conversion]; Region: CoxS; COG2080"
                     /db_xref="CDD:224991"
     misc_feature    301745..>301894
                     /locus_tag="CLC_0319"
                     /note="2Fe-2S iron-sulfur cluster binding domain.
                     Iron-sulfur proteins play an important role in electron
                     transfer processes and in various enzymatic reactions. The
                     family includes plant and algal ferredoxins, which act as
                     electron carriers in photosynthesis...; Region: fer2;
                     cd00207"
                     /db_xref="CDD:238126"
     misc_feature    order(301838..301840,301844..301846,301853..301855,
                     301862..301864,301868..301879)
                     /locus_tag="CLC_0319"
                     /note="catalytic loop [active]"
                     /db_xref="CDD:238126"
     misc_feature    order(301853..301855,301868..301870,301877..301879)
                     /locus_tag="CLC_0319"
                     /note="iron binding site [ion binding]; other site"
                     /db_xref="CDD:238126"
     misc_feature    301955..302167
                     /locus_tag="CLC_0319"
                     /note="[2Fe-2S] binding domain; Region: Fer2_2; pfam01799"
                     /db_xref="CDD:201981"
     gene            302548..303018
                     /locus_tag="CLC_0320"
                     /db_xref="GeneID:5400170"
                     /db_xref="Pathema:CLC_0320"
     CDS             302548..303018
                     /locus_tag="CLC_0320"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386217.1"
                     /db_xref="GI:153936251"
                     /db_xref="GeneID:5400170"
                     /db_xref="Pathema:CLC_0320"
                     /translation="MRVKILIILGASILILTAVGFYIFNNESKALSDNKAENIKKFDE
                     VYSSEINKSYDGTYLDKIVTMVDAKEEFNIKINDINKGSKIILINSSNGEKQDMTYTE
                     NNEFVLTTKLDEGVNYGILMDNKLIGGIRVVDELDKADKEKIYEEVMESLQCGI"
     gene            303029..303711
                     /locus_tag="CLC_0321"
                     /note="cytochrome c-type biogenesis protein CcdA,
                     authentic frameshift; this gene contains a frame shift
                     which is not the result of sequencing error; identified by
                     match to protein family HMM PF02683"
                     /pseudo
                     /db_xref="GeneID:5399155"
                     /db_xref="Pathema:CLC_0321"
     gene            303733..304299
                     /locus_tag="CLC_0322"
                     /db_xref="GeneID:5399120"
                     /db_xref="Pathema:CLC_0322"
     CDS             303733..304299
                     /locus_tag="CLC_0322"
                     /note="identified by match to protein family HMM PF00085;
                     match to protein family HMM PF00578; match to protein
                     family HMM PF08534"
                     /codon_start=1
                     /transl_table=11
                     /product="thiol-disulfide oxidoreductase ResA"
                     /protein_id="YP_001386218.1"
                     /db_xref="GI:153935768"
                     /db_xref="GeneID:5399120"
                     /db_xref="Pathema:CLC_0322"
                     /translation="MKNNKRYIYISVIMLALLVGVKFGYDYLSNNYKSNEAINNVSDE
                     NSSFQPAVDFTVYDKDNNEVKLSDYKGKKAIVVNFWASWCSPCKYEMPYFQEATNKYN
                     NEDLEILMVNLTDGMRETKGSAEGFMKEEGYDMNVMFDINLDAANKYQLNAIPRTVFI
                     DKEGNLVYDHVGIINKEILDENINKIIN"
     misc_feature    303889..304248
                     /locus_tag="CLC_0322"
                     /note="TlpA-like family; composed of  TlpA, ResA, DsbE and
                     similar proteins. TlpA, ResA and DsbE are bacterial
                     protein disulfide reductases with important roles in
                     cytochrome maturation. They are membrane-anchored proteins
                     with a soluble TRX domain containing a...; Region:
                     TlpA_like_family; cd02966"
                     /db_xref="CDD:239264"
     misc_feature    303946..304227
                     /locus_tag="CLC_0322"
                     /note="Thioredoxin-like; Region: Thioredoxin_8; pfam13905"
                     /db_xref="CDD:222448"
     misc_feature    order(303982..303984,303991..303993)
                     /locus_tag="CLC_0322"
                     /note="catalytic residues [active]"
                     /db_xref="CDD:239264"
     gene            304324..305001
                     /locus_tag="CLC_0323"
                     /db_xref="GeneID:5401369"
                     /db_xref="Pathema:CLC_0323"
     CDS             304324..305001
                     /locus_tag="CLC_0323"
                     /note="identified by match to protein family HMM PF00072;
                     match to protein family HMM PF00486"
                     /codon_start=1
                     /transl_table=11
                     /product="DNA-binding response regulator"
                     /protein_id="YP_001386219.1"
                     /db_xref="GI:153935185"
                     /db_xref="GeneID:5401369"
                     /db_xref="Pathema:CLC_0323"
                     /translation="MKETILVIDDEVKIIEVIKLYLENEGYTVIQATSGIEALEKQSE
                     FNPDLLILDLMLPDISGENVCERIRRESEVPIIMLTAKSSEDSILNGYSIGSDDYITK
                     PFSPKQLVAKVNAVLKRVKGNQRENLIFNNELIIDIVNKKVEYNNKEIILTASEYKIL
                     SILAKNPNKIFSREELMDYISRDNTCIYDRIIDTHIKNIRAKLDQDSKNPTYIKTIRG
                     MGYRFNV"
     misc_feature    304324..304992
                     /locus_tag="CLC_0323"
                     /note="phosphate regulon transcriptional regulatory
                     protein PhoB; Region: PhoB; TIGR02154"
                     /db_xref="CDD:131209"
     misc_feature    304384..304674
                     /locus_tag="CLC_0323"
                     /note="Signal receiver domain; originally thought to be
                     unique to bacteria (CheY, OmpR, NtrC, and PhoB), now
                     recently identified in eukaroytes ETR1 Arabidopsis
                     thaliana; this domain receives the signal from the sensor
                     partner in a two-component systems; Region: REC; cd00156"
                     /db_xref="CDD:238088"
     misc_feature    order(304480..304482,304504..304506,304561..304563,
                     304618..304620,304627..304632)
                     /locus_tag="CLC_0323"
                     /note="active site"
                     /db_xref="CDD:238088"
     misc_feature    304480..304482
                     /locus_tag="CLC_0323"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:238088"
     misc_feature    order(304489..304494,304498..304506)
                     /locus_tag="CLC_0323"
                     /note="intermolecular recognition site; other site"
                     /db_xref="CDD:238088"
     misc_feature    304627..304635
                     /locus_tag="CLC_0323"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238088"
     misc_feature    304708..304992
                     /locus_tag="CLC_0323"
                     /note="Effector domain of response regulator. Bacteria and
                     certain eukaryotes like protozoa and higher plants use
                     two-component signal transduction systems to detect and
                     respond to changes in the environment. The system consists
                     of a sensor histidine kinase and...; Region: trans_reg_C;
                     cd00383"
                     /db_xref="CDD:238225"
     misc_feature    order(304780..304782,304837..304842,304894..304896,
                     304903..304905,304927..304932,304966..304968,
                     304981..304983)
                     /locus_tag="CLC_0323"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238225"
     gene            304973..306391
                     /locus_tag="CLC_0324"
                     /db_xref="GeneID:5399377"
                     /db_xref="Pathema:CLC_0324"
     CDS             304973..306391
                     /locus_tag="CLC_0324"
                     /EC_number="2.7.3.-"
                     /note="identified by match to protein family HMM PF00512;
                     match to protein family HMM PF00672; match to protein
                     family HMM PF02518"
                     /codon_start=1
                     /transl_table=11
                     /product="sensor histidine kinase"
                     /protein_id="YP_001386220.1"
                     /db_xref="GI:153935782"
                     /db_xref="GeneID:5399377"
                     /db_xref="Pathema:CLC_0324"
                     /translation="MVWDIGSMFNKLRYRVSLIFILFSLSIIFLANIVNHYCIEKKFN
                     IYTSEKIQQSKMEIKNKISNAYSNNSWDKKAIENIGTDAITGGLLITVKDKNDNIIWN
                     AREYDNIVCEKILNKIIENTNKVSPDVDIKNTFDKFNLKQGEALIGKLEIEYIGPIYY
                     EDSDVIFLRMLDRILFILGLLFFIISIIVGWLLSYAISKPILKVIDATNLISEGNYSK
                     GIKEDYSIYEINKLIKSINMMAGDLDKQEKIRQELTKDISHELRTPITTMQAQLEAIM
                     DGLWEPSQERLKSIYDELQRLNRLTVSIEDLSRCEGSKLRLNKSEVDLETVITTILTN
                     FEKQLLDKDINLQVDLKHINIMIDRDKISQVILNIISNAIKYTPDKGEIFVRCFIKSD
                     NVYISIKDSGIGISDEDKDYIFERFYRTDKSRARETGGVGIGLTISREIVKAHGGSIN
                     VYSKLDEGSNFVIKLPIKFCGT"
     misc_feature    305537..306376
                     /locus_tag="CLC_0324"
                     /note="Signal transduction histidine kinase [Signal
                     transduction mechanisms]; Region: BaeS; COG0642"
                     /db_xref="CDD:223715"
     misc_feature    305537..305701
                     /locus_tag="CLC_0324"
                     /note="HAMP domain; Region: HAMP; pfam00672"
                     /db_xref="CDD:216054"
     misc_feature    305711..305899
                     /locus_tag="CLC_0324"
                     /note="Histidine Kinase A (dimerization/phosphoacceptor)
                     domain; Histidine Kinase A dimers are formed through
                     parallel association of 2 domains creating 4-helix
                     bundles; usually these domains contain a conserved His
                     residue and are activated via...; Region: HisKA; cd00082"
                     /db_xref="CDD:119399"
     misc_feature    order(305729..305731,305741..305743,305753..305755,
                     305762..305764,305774..305776,305783..305785,
                     305828..305830,305840..305842,305849..305851,
                     305861..305863,305870..305872,305882..305884)
                     /locus_tag="CLC_0324"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:119399"
     misc_feature    305747..305749
                     /locus_tag="CLC_0324"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:119399"
     misc_feature    306056..306367
                     /locus_tag="CLC_0324"
                     /note="Histidine kinase-like ATPases; This family includes
                     several ATP-binding proteins for example: histidine
                     kinase, DNA gyrase B, topoisomerases, heat shock protein
                     HSP90, phytochrome-like ATPases and DNA mismatch repair
                     proteins; Region: HATPase_c; cd00075"
                     /db_xref="CDD:238030"
     misc_feature    order(306074..306076,306086..306088,306095..306097,
                     306164..306166,306170..306172,306176..306178,
                     306182..306187,306266..306277,306323..306325,
                     306329..306331,306344..306349,306353..306355)
                     /locus_tag="CLC_0324"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    306086..306088
                     /locus_tag="CLC_0324"
                     /note="Mg2+ binding site [ion binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    order(306176..306178,306182..306184,306266..306268,
                     306272..306274)
                     /locus_tag="CLC_0324"
                     /note="G-X-G motif; other site"
                     /db_xref="CDD:238030"
     gene            complement(306602..307838)
                     /locus_tag="CLC_0325"
                     /note="FAD binding domain protein, authentic frameshift;
                     this gene contains a frame shift which is not the result
                     of sequencing error; identified by match to protein family
                     HMM PF01565"
                     /pseudo
                     /db_xref="GeneID:5398767"
                     /db_xref="Pathema:CLC_0325"
     gene            308150..309475
                     /gene="glvA-1"
                     /locus_tag="CLC_0326"
                     /db_xref="GeneID:5400289"
                     /db_xref="Pathema:CLC_0326"
     CDS             308150..309475
                     /gene="glvA-1"
                     /locus_tag="CLC_0326"
                     /EC_number="3.2.1.122"
                     /note="identified by match to protein family HMM PF02056"
                     /codon_start=1
                     /transl_table=11
                     /product="maltose-6'-phosphate glucosidase"
                     /protein_id="YP_001386221.1"
                     /db_xref="GI:153937334"
                     /db_xref="GeneID:5400289"
                     /db_xref="Pathema:CLC_0326"
                     /translation="MKKYNVVIVGGGSTFTPGFLKSFCRCKKDFPLNKLVLFDIDAER
                     QTPIGEFGQILMKENYEGLDFKYTTDIEEAYKDMDFVFMQMRVGGLHMRAKDEHIPLS
                     MGLIGQETCGAGGMAYGLRSTKEMIKAIYDIRKYSPNAWILNYSNPAAIVAEALRREF
                     PNDNKILNICDQPENVVRSCSRLLGCDWETLDPVYFGLNHYGWFTHIYDKNTGEDLLP
                     KLKELIKEKGFLPQDAEQRDQSWLDTYGMVQTLMNDFPDYLPNTYDQYYLYPDYKASH
                     LDPNFTRADEVMAHRENRVFTECRKVIDAGTTEGIIKIESDAHAEMMIEVAASIAYNK
                     NKRYIIIVENNGAINNMQDDAMVEVVAELGINGPRPMRVGNIPQFYLGLLVNQVSCEK
                     LLIDAYYEKSYNKALQAFTINRLINDGKKARKVLDALIEANKGYWPELK"
     misc_feature    308150..309472
                     /gene="glvA-1"
                     /locus_tag="CLC_0326"
                     /note="Alpha-galactosidases/6-phospho-beta-glucosidases,
                     family 4 of glycosyl hydrolases [Carbohydrate transport
                     and metabolism]; Region: CelF; COG1486"
                     /db_xref="CDD:224403"
     misc_feature    308159..309472
                     /gene="glvA-1"
                     /locus_tag="CLC_0326"
                     /note="Glycoside Hydrolases Family 4; GlvA- and pagL-like
                     glycosidases; Region: GH4_GlvA_pagL_like; cd05298"
                     /db_xref="CDD:133434"
     misc_feature    order(308183..308194,308264..308269,308399..308407,
                     308417..308419,308474..308476,308501..308503,
                     308582..308584,308588..308590,308654..308662,
                     309020..309022)
                     /gene="glvA-1"
                     /locus_tag="CLC_0326"
                     /note="NAD binding site [chemical binding]; other site"
                     /db_xref="CDD:133434"
     misc_feature    order(308426..308428,308474..308476,308588..308590,
                     308657..308665,308747..308749,308936..308938,
                     308996..308998,309020..309022)
                     /gene="glvA-1"
                     /locus_tag="CLC_0326"
                     /note="sugar binding site [chemical binding]; other site"
                     /db_xref="CDD:133434"
     misc_feature    order(308657..308659,308747..308749)
                     /gene="glvA-1"
                     /locus_tag="CLC_0326"
                     /note="divalent metal binding site [ion binding]; other
                     site"
                     /db_xref="CDD:133434"
     misc_feature    order(308714..308716,308723..308725,308771..308773,
                     308786..308788,309146..309148,309182..309184,
                     309239..309244,309248..309250,309254..309265)
                     /gene="glvA-1"
                     /locus_tag="CLC_0326"
                     /note="putative tetramer (dimer of dimers) interface
                     [polypeptide binding]; other site"
                     /db_xref="CDD:133434"
     misc_feature    order(308915..308917,308951..308953,309278..309283,
                     309293..309295,309302..309304,309314..309316,
                     309323..309325,309335..309337,309353..309355,
                     309359..309361,309368..309373,309380..309385,
                     309398..309400,309404..309406,309410..309412,
                     309416..309418)
                     /gene="glvA-1"
                     /locus_tag="CLC_0326"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:133434"
     gene            309638..311161
                     /locus_tag="CLC_0327"
                     /db_xref="GeneID:5400950"
                     /db_xref="Pathema:CLC_0327"
     CDS             309638..311161
                     /locus_tag="CLC_0327"
                     /note="identified by match to protein family HMM PF00367;
                     match to protein family HMM PF02378"
                     /codon_start=1
                     /transl_table=11
                     /product="PTS system maltose/glucose-specfic transporter
                     subunit IIBC"
                     /protein_id="YP_001386222.1"
                     /db_xref="GI:153936612"
                     /db_xref="GeneID:5400950"
                     /db_xref="Pathema:CLC_0327"
                     /translation="MSKKNKIMDFFSALGRSLMLPIATLAAAGLILGLSSALLKPQIQ
                     AALPFLQNSVGVYVLTLIKTITATVFGMIPVLFAICIAFGLAKEEKEIAAFAGFIGYY
                     TFLLSASIIINSGAFNFASLKMSNILGIEKTIEMGAFAGILTGILTSMLHNKFYKIDF
                     PIAIAFYGGKRFVAIVVIGAMTLLGQVMPFVWVPISSGINSLGSLIASSGHTGVFLFG
                     FLERILIPTGLHHVLNGVFRTTSVGGVYQGVEGCLNIFLQFFDKVDISQLKQFTAFLG
                     QGKMPFMMFGLPAAAYAIYKTSPDNKKPKVKALMVAGVAASIVSGITEPLEFSFMFIA
                     PQLFLFHAIMGGISFGILSLLGVAIGNTGGGIIDFLIYGVLVPGSRWYIVILVGIVFA
                     VIYYMVFKWYFTNKNISIDVNEDVEEEDFSKDSSGKTNLAVKIINGLGGIDNIVAVNN
                     CISRLRVDIKDMSLVNEDLLKKTGSMGIVKPSSTHIHVIYGPKVEKVAKQVKEAMKY"
     misc_feature    309644..311113
                     /locus_tag="CLC_0327"
                     /note="bifunctional PTS system maltose and
                     glucose-specific transporter subunits IICB; Provisional;
                     Region: PRK10110"
                     /db_xref="CDD:182245"
     misc_feature    309782..310906
                     /locus_tag="CLC_0327"
                     /note="Phosphotransferase system IIC components,
                     glucose/maltose/N-acetylglucosamine-specific [Carbohydrate
                     transport and metabolism]; Region: PtsG; COG1263"
                     /db_xref="CDD:224183"
     misc_feature    310928..311113
                     /locus_tag="CLC_0327"
                     /note="PTS_IIB, PTS system, glucose/sucrose specific IIB
                     subunit. The bacterial phosphoenolpyruvate: sugar
                     phosphotransferase system (PTS) is a multi-protein system
                     involved in the regulation of a variety of metabolic and
                     transcriptional processes. This family...; Region:
                     PTS_IIB_glc; cd00212"
                     /db_xref="CDD:238130"
     misc_feature    310985..311005
                     /locus_tag="CLC_0327"
                     /note="active site turn [active]"
                     /db_xref="CDD:238130"
     misc_feature    310988..310990
                     /locus_tag="CLC_0327"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:238130"
     gene            complement(311212..311979)
                     /locus_tag="CLC_0328"
                     /db_xref="GeneID:5400648"
                     /db_xref="Pathema:CLC_0328"
     CDS             complement(311212..311979)
                     /locus_tag="CLC_0328"
                     /note="identified by match to protein family HMM PF01380;
                     match to protein family HMM PF01418"
                     /codon_start=1
                     /transl_table=11
                     /product="RpiR family transcriptional regulator"
                     /protein_id="YP_001386223.1"
                     /db_xref="GI:153935393"
                     /db_xref="GeneID:5400648"
                     /db_xref="Pathema:CLC_0328"
                     /translation="MIDDLDEKILKKLTPNEKDLLNYINSNKFEIYKMSIHEFAQITY
                     VSTATVLRLCKKLGFNGFNELKFNLKKSITLKNKGYDSSIGLNGLLSRRLLELKETML
                     SLNLEQLDSIVDYLCSDKNIHIFGRGLTQMSLEYLYNILISLNRQCMFYLDPPLVYQT
                     ASQMDENDVFIIGSFGGSTDPIVKAVEISKNNTGTVIAITSNPNSELAKKADIVLIGK
                     TQNRFFSGIDINSRLSIQFIVEIIIELYMSRMNIVSH"
     misc_feature    complement(311227..311979)
                     /locus_tag="CLC_0328"
                     /note="Transcriptional regulators [Transcription]; Region:
                     RpiR; COG1737"
                     /db_xref="CDD:224651"
     misc_feature    complement(311761..311967)
                     /locus_tag="CLC_0328"
                     /note="Helix-turn-helix domain, rpiR family; Region:
                     HTH_6; pfam01418"
                     /db_xref="CDD:201784"
     misc_feature    complement(311251..311661)
                     /locus_tag="CLC_0328"
                     /note="RpiR-like protein. RpiR contains a SIS (Sugar
                     ISomerase) domain, which is found in many phosphosugar
                     isomerases and phosphosugar binding proteins. In E. coli,
                     rpiR negatively regulates the expression of rpiB gene.
                     Both rpiB and rpiA are ribose phosphate...; Region:
                     SIS_RpiR; cd05013"
                     /db_xref="CDD:240144"
     misc_feature    complement(order(311458..311460,311590..311592))
                     /locus_tag="CLC_0328"
                     /note="putative active site [active]"
                     /db_xref="CDD:240144"
     gene            complement(311995..312774)
                     /locus_tag="CLC_0329"
                     /db_xref="GeneID:5400260"
                     /db_xref="Pathema:CLC_0329"
     CDS             complement(311995..312774)
                     /locus_tag="CLC_0329"
                     /note="identified by match to protein family HMM PF01380;
                     match to protein family HMM PF01418"
                     /codon_start=1
                     /transl_table=11
                     /product="RpiR family transcriptional regulator"
                     /protein_id="YP_001386224.1"
                     /db_xref="GI:153934472"
                     /db_xref="GeneID:5400260"
                     /db_xref="Pathema:CLC_0329"
                     /translation="MLDCIDNSILNTLTQSELSVLQYIDVHSNEVLTMSIQELSEKVF
                     FSTATILRLCKKLNLSGFSELKFTLKNNVSFNNSLKSTAVSTKKIVTDLYSEIENTGR
                     LLDTKTLDTIVGYLLSNKKIHLFSYGLTNMAFEYMQRYLLATGRQTILYKTDTLAYKA
                     VNNLTENDVLFLSSSTGSNPSTLKLAKIAKNSNTIIVAITPFTNNPLSKIADINLYTF
                     IKERDFFDSDIKNRTCIFYIVDMIIECYIKYLDKSKFNNLY"
     misc_feature    complement(312001..312756)
                     /locus_tag="CLC_0329"
                     /note="Transcriptional regulators [Transcription]; Region:
                     RpiR; COG1737"
                     /db_xref="CDD:224651"
     misc_feature    complement(312565..312756)
                     /locus_tag="CLC_0329"
                     /note="Helix-turn-helix domain, rpiR family; Region:
                     HTH_6; pfam01418"
                     /db_xref="CDD:201784"
     misc_feature    complement(312040..312456)
                     /locus_tag="CLC_0329"
                     /note="RpiR-like protein. RpiR contains a SIS (Sugar
                     ISomerase) domain, which is found in many phosphosugar
                     isomerases and phosphosugar binding proteins. In E. coli,
                     rpiR negatively regulates the expression of rpiB gene.
                     Both rpiB and rpiA are ribose phosphate...; Region:
                     SIS_RpiR; cd05013"
                     /db_xref="CDD:240144"
     misc_feature    complement(order(312253..312255,312385..312387))
                     /locus_tag="CLC_0329"
                     /note="putative active site [active]"
                     /db_xref="CDD:240144"
     gene            313050..313532
                     /locus_tag="CLC_0330"
                     /db_xref="GeneID:5398432"
                     /db_xref="Pathema:CLC_0330"
     CDS             313050..313532
                     /locus_tag="CLC_0330"
                     /note="identified by match to protein family HMM PF00358;
                     match to protein family HMM TIGR00830"
                     /codon_start=1
                     /transl_table=11
                     /product="PTS system glucose family transporter subunit
                     IIA"
                     /protein_id="YP_001386225.1"
                     /db_xref="GI:153935092"
                     /db_xref="GeneID:5398432"
                     /db_xref="Pathema:CLC_0330"
                     /translation="MFSLFKKKEKNLKLKAYLSGKMISINKVPDEVFSSKIMGDGLAI
                     IPTTSIVKSPADGEITVVMEESKHAVGIKFENGVEALIHVGIDTVSMNGEGFEVFVKT
                     GDSVKEGQDLIMFDEELIKNRGLSTYTMLVITNSSEYPNMVIEAEKEVKEKESVIITF
                     "
     misc_feature    313104..313466
                     /locus_tag="CLC_0330"
                     /note="Phosphotransferase system IIA components
                     [Carbohydrate transport and metabolism]; Region: NagE;
                     COG2190"
                     /db_xref="CDD:225101"
     misc_feature    order(313137..313148,313158..313163,313227..313232,
                     313236..313241,313260..313268,313284..313292,
                     313296..313298,313308..313310,313314..313319,
                     313353..313355,313449..313451,313458..313460)
                     /locus_tag="CLC_0330"
                     /note="HPr interaction site; other site"
                     /db_xref="CDD:238128"
     misc_feature    order(313137..313139,313143..313148,313152..313154,
                     313158..313163,313230..313232,313236..313238,
                     313251..313253,313290..313292,313296..313298,
                     313308..313310,313314..313319,313323..313325,
                     313449..313451)
                     /locus_tag="CLC_0330"
                     /note="glycerol kinase (GK) interaction site [polypeptide
                     binding]; other site"
                     /db_xref="CDD:238128"
     misc_feature    order(313245..313247,313251..313253,313296..313298,
                     313302..313304)
                     /locus_tag="CLC_0330"
                     /note="active site"
                     /db_xref="CDD:238128"
     misc_feature    313296..313298
                     /locus_tag="CLC_0330"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:238128"
     gene            313630..314406
                     /locus_tag="CLC_0331"
                     /db_xref="GeneID:5400087"
                     /db_xref="Pathema:CLC_0331"
     CDS             313630..314406
                     /locus_tag="CLC_0331"
                     /note="identified by match to protein family HMM PF00072;
                     match to protein family HMM PF00486"
                     /codon_start=1
                     /transl_table=11
                     /product="DNA-binding response regulator"
                     /protein_id="YP_001386226.1"
                     /db_xref="GI:153937704"
                     /db_xref="GeneID:5400087"
                     /db_xref="Pathema:CLC_0331"
                     /translation="MRKLYINNIFNKWYNYIYKCLKVVIILYSIMIIEDDKKMAKLIE
                     NHLERYGYKTFSIKDFSNIKDEVLECKPDLILMDINLPFFDGFYWCSDIRNHSKVPII
                     FISARDSDMDQVMAIENGGDDFITKPFSYYVLLAKIKGVLRRVYGSYAKNDTDFLKID
                     DLILYTNKSMLEFKGRKTELSKNEFSLLLYLLKNINKIVSRDTLLEILWSDTDFIDDN
                     TLSVNVTRLRKRLEEVGITNAIETKRGQGYMLINKWESKE"
     misc_feature    313717..314391
                     /locus_tag="CLC_0331"
                     /note="Response regulators consisting of a CheY-like
                     receiver domain and a winged-helix DNA-binding domain
                     [Signal transduction mechanisms / Transcription]; Region:
                     OmpR; COG0745"
                     /db_xref="CDD:223816"
     misc_feature    313720..314055
                     /locus_tag="CLC_0331"
                     /note="Signal receiver domain; originally thought to be
                     unique to bacteria (CheY, OmpR, NtrC, and PhoB), now
                     recently identified in eukaroytes ETR1 Arabidopsis
                     thaliana; this domain receives the signal from the sensor
                     partner in a two-component systems; Region: REC; cd00156"
                     /db_xref="CDD:238088"
     misc_feature    order(313729..313734,313861..313863,313885..313887,
                     313942..313944,313999..314001,314008..314013)
                     /locus_tag="CLC_0331"
                     /note="active site"
                     /db_xref="CDD:238088"
     misc_feature    313861..313863
                     /locus_tag="CLC_0331"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:238088"
     misc_feature    order(313870..313875,313879..313887)
                     /locus_tag="CLC_0331"
                     /note="intermolecular recognition site; other site"
                     /db_xref="CDD:238088"
     misc_feature    314008..314016
                     /locus_tag="CLC_0331"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238088"
     misc_feature    314098..314379
                     /locus_tag="CLC_0331"
                     /note="Effector domain of response regulator. Bacteria and
                     certain eukaryotes like protozoa and higher plants use
                     two-component signal transduction systems to detect and
                     respond to changes in the environment. The system consists
                     of a sensor histidine kinase and...; Region: trans_reg_C;
                     cd00383"
                     /db_xref="CDD:238225"
     misc_feature    order(314170..314172,314227..314232,314284..314286,
                     314293..314295,314317..314322,314353..314355,
                     314368..314370)
                     /locus_tag="CLC_0331"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238225"
     gene            314416..315465
                     /locus_tag="CLC_0332"
                     /db_xref="GeneID:5400723"
                     /db_xref="Pathema:CLC_0332"
     CDS             314416..315465
                     /locus_tag="CLC_0332"
                     /EC_number="2.7.3.-"
                     /note="identified by match to protein family HMM PF00512;
                     match to protein family HMM PF02518"
                     /codon_start=1
                     /transl_table=11
                     /product="sensor histidine kinase"
                     /protein_id="YP_001386227.1"
                     /db_xref="GI:153936458"
                     /db_xref="GeneID:5400723"
                     /db_xref="Pathema:CLC_0332"
                     /translation="MKFIDFLKDRIAYIIVYFISISLVILIMHLTLFIKVIDFPITNI
                     LYAYFVSIVILIIFLLYEYSKLRVFYKQIYRALNSEDIIEDIVNIGEARTREQKLFTE
                     LLKKIHKSYEGKIYKYEDIQKHYSNFINQWVHQMKTPVSVINLILEEENPCECKEVFD
                     SIGEENEKISQGLNIMLYNARINEFNHDFNVEDVDILFILRKVINDNKKLLIRHKIFP
                     KIAGETTIVQTDKKWIYFVINQIVINAIKYTVATEKDKKTINLKIEEDTGKIIVSIED
                     NGIGIPKEDLGRVFNAFFTGKNGRKTSESTGMGMYLSKRICSELGNELYVESEEGEGT
                     TFYIVFYKGKNIFKL"
     misc_feature    314620..315435
                     /locus_tag="CLC_0332"
                     /note="Signal transduction histidine kinase [Signal
                     transduction mechanisms]; Region: BaeS; COG0642"
                     /db_xref="CDD:223715"
     misc_feature    314791..314967
                     /locus_tag="CLC_0332"
                     /note="His Kinase A (phosphoacceptor) domain; Region:
                     HisKA; smart00388"
                     /db_xref="CDD:214644"
     misc_feature    315115..315435
                     /locus_tag="CLC_0332"
                     /note="Histidine kinase-like ATPases; This family includes
                     several ATP-binding proteins for example: histidine
                     kinase, DNA gyrase B, topoisomerases, heat shock protein
                     HSP90, phytochrome-like ATPases and DNA mismatch repair
                     proteins; Region: HATPase_c; cd00075"
                     /db_xref="CDD:238030"
     misc_feature    order(315133..315135,315145..315147,315154..315156,
                     315235..315237,315241..315243,315247..315249,
                     315253..315258,315334..315345,315391..315393,
                     315397..315399,315412..315417,315421..315423)
                     /locus_tag="CLC_0332"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    315145..315147
                     /locus_tag="CLC_0332"
                     /note="Mg2+ binding site [ion binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    order(315247..315249,315253..315255,315334..315336,
                     315340..315342)
                     /locus_tag="CLC_0332"
                     /note="G-X-G motif; other site"
                     /db_xref="CDD:238030"
     gene            315585..316355
                     /locus_tag="CLC_0333"
                     /db_xref="GeneID:5401674"
                     /db_xref="Pathema:CLC_0333"
     CDS             315585..316355
                     /locus_tag="CLC_0333"
                     /note="identified by match to protein family HMM PF00005"
                     /codon_start=1
                     /transl_table=11
                     /product="peptide ABC transporter ATP-binding protein"
                     /protein_id="YP_001386228.1"
                     /db_xref="GI:153937388"
                     /db_xref="GeneID:5401674"
                     /db_xref="Pathema:CLC_0333"
                     /translation="MSILKVENITKIYGGKKGGMKFKALDKFSLEIEKGEFVGVMGPS
                     GSGKTTLLNIMATIDTPTSGELFINGTNPIKLNEKNIALFRRKELGFIFQDFNLLDSL
                     SIKENIILPLVLEKIKVREIEKKVEDIANLLNIKDILNKKPYEISGGQQQRAACARAL
                     IHNPSIILADEPTGNLDSKASQDVMETLTNLNDKKEATIMMVTHDPFSASFCKRIIMI
                     KDGKYFLEIVNGGNRQAFFKEIMDSLSLLGSRSNNYTL"
     misc_feature    315591..316271
                     /locus_tag="CLC_0333"
                     /note="ABC-type antimicrobial peptide transport system,
                     ATPase component [Defense mechanisms]; Region: SalX;
                     COG1136"
                     /db_xref="CDD:224059"
     misc_feature    315594..316250
                     /locus_tag="CLC_0333"
                     /note="ATP-binding cassette domain of the transporters
                     involved in export of lipoprotein and macrolide, and cell
                     division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255"
                     /db_xref="CDD:213222"
     misc_feature    315708..315731
                     /locus_tag="CLC_0333"
                     /note="Walker A/P-loop; other site"
                     /db_xref="CDD:213222"
     misc_feature    order(315717..315722,315726..315734,315864..315866,
                     316092..316097,316194..316196)
                     /locus_tag="CLC_0333"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:213222"
     misc_feature    315855..315866
                     /locus_tag="CLC_0333"
                     /note="Q-loop/lid; other site"
                     /db_xref="CDD:213222"
     misc_feature    316020..316049
                     /locus_tag="CLC_0333"
                     /note="ABC transporter signature motif; other site"
                     /db_xref="CDD:213222"
     misc_feature    316080..316097
                     /locus_tag="CLC_0333"
                     /note="Walker B; other site"
                     /db_xref="CDD:213222"
     misc_feature    316104..316115
                     /locus_tag="CLC_0333"
                     /note="D-loop; other site"
                     /db_xref="CDD:213222"
     misc_feature    316182..316202
                     /locus_tag="CLC_0333"
                     /note="H-loop/switch region; other site"
                     /db_xref="CDD:213222"
     gene            316369..318339
                     /locus_tag="CLC_0334"
                     /db_xref="GeneID:5399831"
                     /db_xref="Pathema:CLC_0334"
     CDS             316369..318339
                     /locus_tag="CLC_0334"
                     /note="identified by match to protein family HMM PF02687"
                     /codon_start=1
                     /transl_table=11
                     /product="peptide ABC transporter permease"
                     /protein_id="YP_001386229.1"
                     /db_xref="GI:153934514"
                     /db_xref="GeneID:5399831"
                     /db_xref="Pathema:CLC_0334"
                     /translation="MTINNIVIKNIKGNLNKYAMYYLSNVIVVTIFFIFANFIYNPGV
                     SSGNISDKTISEVASKLMYLCEFVIIIFTFIFSNYSITTFLKSREKEFGLLSMFGLTK
                     NQIRRYVMFENITISIVSIITGIFFGILFSKLFFMALSVILDLNAEIPFLISSKAVKI
                     TILSFLVVLNLISFITSFKIKNNNIAELLKGERIPKTTPKFSKIKAILGIVLIISGYI
                     VGIFSGTAIISTMIPILIVVIIGTKLLFSQFSVFFTNKLQNNKRIYYKGINLITLSQI
                     IYKLKDNAKVLFITSILSGITLASAISVYSLQKVSLSSMEENCPQDIGIIEQGINSHK
                     VIANGKVEDILKKYKFDIQYKNKIELIKAKNSDMVKENKKNPYNIKINKNDFNIMSEN
                     SFNELAKQYNKKPLDLKNGEVVIYTYDFTNNLANLKTELPFNHQKTLNLNIEGKASSF
                     NILDNLKGGIINADSQNTNTLIVNNSDFKKLWSRVSNSNKYVYYGYNIKHNLKAVAAV
                     TEIKNAVTKGQEAFFTERVISAASVMQLLSVLLFIGTFIAMIFFIATGSILYFKMFNE
                     VQKDKQDFIGLKKIGVTQEEIKKIVSIQSFTMFFLPLTVAILHAAFAVKSVGLLYTKY
                     FIFIAGIYLVLQIIYYLFAKWMYMKQINSWNI"
     gene            318579..319793
                     /gene="alr"
                     /locus_tag="CLC_0335"
                     /db_xref="GeneID:5400172"
                     /db_xref="Pathema:CLC_0335"
     CDS             318579..319793
                     /gene="alr"
                     /locus_tag="CLC_0335"
                     /EC_number="5.1.1.1"
                     /note="converts L-alanine to D-alanine which is used in
                     cell wall biosynthesis; binds one pyridoxal phosphate per
                     monomer; forms a homodimer"
                     /codon_start=1
                     /transl_table=11
                     /product="alanine racemase"
                     /protein_id="YP_001386230.1"
                     /db_xref="GI:153935439"
                     /db_xref="GeneID:5400172"
                     /db_xref="Pathema:CLC_0335"
                     /translation="MFEHSRPAWIEINLDNLIHNMKEIRRVARSKEIISVVKADAYGH
                     GALEIASLLLENGANRLAVAVLSEALELRNSGITAPIIILGYTPLRYDERTICNNAET
                     IIKNDLEVSVSSYKYAEQLSKKAQQLGKDVKIHVNIDTGMGRLGFLPTEENLEKIYQI
                     SKLPNIIFEGLFSHFSTADEKNKEYTNEQFKKFLDFYYKLRDKNVKVNIKHIANSAAL
                     IDLPYTHLDAVRPGIAQYGYYPSSEVNHKDINLRPIMTLKTNIVLVKDIKSGQSISYG
                     RKFRTIRNSKIAVLPIGYADGYERELSNENNVYKAQVIVNGRRAPIVGRITMDMCMID
                     VTDIGDVKVGDEVILIGECNDERISVEDIANLLNTIPYEVTSRISKRIPRYYIKDGKI
                     VKISQINKEVNK"
     misc_feature    318594..319739
                     /gene="alr"
                     /locus_tag="CLC_0335"
                     /note="alanine racemase; Reviewed; Region: alr; PRK00053"
                     /db_xref="CDD:234600"
     misc_feature    318597..319739
                     /gene="alr"
                     /locus_tag="CLC_0335"
                     /note="Type III Pyridoxal 5-phosphate (PLP)-Dependent
                     Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430"
                     /db_xref="CDD:143481"
     misc_feature    order(318684..318686,318690..318692,318702..318704,
                     318828..318830,318987..318989,319008..319010,
                     319098..319100,319218..319223,319266..319277,
                     319401..319403,319458..319460,319557..319562,
                     319692..319694)
                     /gene="alr"
                     /locus_tag="CLC_0335"
                     /note="active site"
                     /db_xref="CDD:143481"
     misc_feature    order(318684..318686,318690..318692,318702..318704,
                     318828..318830,319008..319010,319098..319100,
                     319218..319223,319266..319277,319692..319694)
                     /gene="alr"
                     /locus_tag="CLC_0335"
                     /note="pyridoxal 5'-phosphate (PLP) binding site [chemical
                     binding]; other site"
                     /db_xref="CDD:143481"
     misc_feature    order(318690..318695,318768..318770,318777..318782,
                     318915..318920,319002..319013,319098..319100,
                     319104..319106,319362..319373,319377..319379,
                     319389..319394,319398..319406,319443..319445,
                     319458..319460,319476..319478,319563..319568,
                     319680..319685,319692..319697,319719..319721)
                     /gene="alr"
                     /locus_tag="CLC_0335"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:143481"
     misc_feature    order(318690..318692,318702..318704,319008..319010,
                     319098..319100,319401..319403,319458..319460,
                     319557..319562,319692..319694)
                     /gene="alr"
                     /locus_tag="CLC_0335"
                     /note="substrate binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:143481"
     misc_feature    order(318690..318692,319401..319403)
                     /gene="alr"
                     /locus_tag="CLC_0335"
                     /note="catalytic residues [active]"
                     /db_xref="CDD:143481"
     gene            320313..321884
                     /locus_tag="CLC_0336"
                     /db_xref="GeneID:5401413"
                     /db_xref="Pathema:CLC_0336"
     CDS             320313..321884
                     /locus_tag="CLC_0336"
                     /note="identified by match to protein family HMM PF00367;
                     match to protein family HMM PF02378; match to protein
                     family HMM TIGR00826"
                     /codon_start=1
                     /transl_table=11
                     /product="PTS system glucose/glucoside family transporter
                     subunit IIBC"
                     /protein_id="YP_001386231.1"
                     /db_xref="GI:153936922"
                     /db_xref="GeneID:5401413"
                     /db_xref="Pathema:CLC_0336"
                     /translation="MKDLIVDKMQMFAKAIIVPVLFLPIVGVILALSSILSNPSIVGE
                     SGLLMNIGKFISSGLWPIMTNLSIIFCVGIAMGLAKEKKAEAALVAVFSYLVYLGANN
                     QWLTLTGKLVKYKVPADLYGTGQTLQLGFQVIDMGVFLGMILGVVVAIIHNKYCNKEF
                     PGAFGLYGNTKLVFIVLTPITLILAVVFSYIWPVVAAGISALTGFINAAGAIGVFLYG
                     FLNRFLIPTGLHHLIWTPFSYSNIGGELIINGQKYYGAYNIFLAQLTDPAIKVFDPSA
                     KYLQYGMVKMFGLAGAALAFYKTSKPENKVKLKSILIPAVATSILVGITEPLEFTFLF
                     VAPFLWVVHSVLDGIFEAVVSLLGVRTFAANGFIDFIAYNLPAGIAKTKWPIFIAVGL
                     VQLAVYFFVFKFLIKKFNLKTPGREDKEVKLVTKKDFKENLAKASGEVAASKDSDLAG
                     IVVEALGGKENIESVDNCFTRLRLKLKNIDVVDETALKGTGAVGVIKKGNNVQVIYGP
                     KVNGIRNIVDKYLGN"
     misc_feature    320334..321854
                     /locus_tag="CLC_0336"
                     /note="PTS system, alpha-glucoside-specific IIBC
                     component; Region: PTS-IIBC-alpha; TIGR02005"
                     /db_xref="CDD:233683"
     misc_feature    320334..321593
                     /locus_tag="CLC_0336"
                     /note="Phosphotransferase system IIC components,
                     glucose/maltose/N-acetylglucosamine-specific [Carbohydrate
                     transport and metabolism]; Region: PtsG; COG1263"
                     /db_xref="CDD:224183"
     misc_feature    321648..321845
                     /locus_tag="CLC_0336"
                     /note="PTS_IIB, PTS system, glucose/sucrose specific IIB
                     subunit. The bacterial phosphoenolpyruvate: sugar
                     phosphotransferase system (PTS) is a multi-protein system
                     involved in the regulation of a variety of metabolic and
                     transcriptional processes. This family...; Region:
                     PTS_IIB_glc; cd00212"
                     /db_xref="CDD:238130"
     misc_feature    321711..321731
                     /locus_tag="CLC_0336"
                     /note="active site turn [active]"
                     /db_xref="CDD:238130"
     misc_feature    321714..321716
                     /locus_tag="CLC_0336"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:238130"
     gene            322200..323525
                     /gene="glvA-2"
                     /locus_tag="CLC_0337"
                     /db_xref="GeneID:5398653"
                     /db_xref="Pathema:CLC_0337"
     CDS             322200..323525
                     /gene="glvA-2"
                     /locus_tag="CLC_0337"
                     /EC_number="3.2.1.122"
                     /note="identified by match to protein family HMM PF02056"
                     /codon_start=1
                     /transl_table=11
                     /product="maltose-6'-phosphate glucosidase"
                     /protein_id="YP_001386232.1"
                     /db_xref="GI:153937811"
                     /db_xref="GeneID:5398653"
                     /db_xref="Pathema:CLC_0337"
                     /translation="MKKFSVTIAGGGSTFTPGIILMLLDNLDKFPIKKLKLYDNDKER
                     QEIVAGACKVILKEKAPEIEFLATVDPEEAFTDIDFVMAHIRVGKYAMRELDEKIPLK
                     YDVLGQETCGPGGMAYGMRSIGGVIEILDYMEKYSPNAWMLNYSNPAAIVAEATRRLR
                     PNSKILNICDMPIGIEVRMAEILGLESRKDMSVRYYGLNHFGWWTDIRDKEGNDLMPK
                     IKEHVSKHGYVVDKGDSQHTEASWNDTFAKAKDVYAVDPNTLPNTYLKYYLFQDYVVK
                     HANKEYTRANEVMDGREKFVFGECKKVIEKQSTEGCELHIDEHACYIVDLARAIAYNT
                     KERMLLIVENNGIIENFDSTAMVEVPCILGSNGPEPLAIGKIPQFQKGLMEQQVSVEK
                     LVVEAWIEKSYQKLWQAITLSKTVPSASVAKNILDDLIEANKDYWPELK"
     misc_feature    322200..323522
                     /gene="glvA-2"
                     /locus_tag="CLC_0337"
                     /note="Alpha-galactosidases/6-phospho-beta-glucosidases,
                     family 4 of glycosyl hydrolases [Carbohydrate transport
                     and metabolism]; Region: CelF; COG1486"
                     /db_xref="CDD:224403"
     misc_feature    322209..323522
                     /gene="glvA-2"
                     /locus_tag="CLC_0337"
                     /note="Glycoside Hydrolases Family 4; GlvA- and pagL-like
                     glycosidases; Region: GH4_GlvA_pagL_like; cd05298"
                     /db_xref="CDD:133434"
     misc_feature    order(322233..322244,322314..322319,322449..322457,
                     322467..322469,322524..322526,322551..322553,
                     322632..322634,322638..322640,322701..322709,
                     323073..323075)
                     /gene="glvA-2"
                     /locus_tag="CLC_0337"
                     /note="NAD binding site [chemical binding]; other site"
                     /db_xref="CDD:133434"
     misc_feature    order(322476..322478,322524..322526,322638..322640,
                     322704..322712,322797..322799,322989..322991,
                     323049..323051,323073..323075)
                     /gene="glvA-2"
                     /locus_tag="CLC_0337"
                     /note="sugar binding site [chemical binding]; other site"
                     /db_xref="CDD:133434"
     misc_feature    order(322704..322706,322797..322799)
                     /gene="glvA-2"
                     /locus_tag="CLC_0337"
                     /note="divalent metal binding site [ion binding]; other
                     site"
                     /db_xref="CDD:133434"
     misc_feature    order(322764..322766,322773..322775,322821..322823,
                     322833..322835,323196..323198,323232..323234,
                     323289..323294,323298..323300,323304..323315)
                     /gene="glvA-2"
                     /locus_tag="CLC_0337"
                     /note="putative tetramer (dimer of dimers) interface
                     [polypeptide binding]; other site"
                     /db_xref="CDD:133434"
     misc_feature    order(322968..322970,323004..323006,323328..323333,
                     323343..323345,323352..323354,323364..323366,
                     323373..323375,323385..323387,323403..323405,
                     323409..323411,323418..323423,323430..323435,
                     323448..323450,323454..323456,323460..323462,
                     323466..323468)
                     /gene="glvA-2"
                     /locus_tag="CLC_0337"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:133434"
     gene            323839..324348
                     /locus_tag="CLC_0338"
                     /db_xref="GeneID:5398292"
                     /db_xref="Pathema:CLC_0338"
     CDS             323839..324348
                     /locus_tag="CLC_0338"
                     /note="identified by match to protein family HMM PF00358;
                     match to protein family HMM TIGR00830"
                     /codon_start=1
                     /transl_table=11
                     /product="PTS system glucose/glucoside family transporter
                     subunit IIA"
                     /protein_id="YP_001386233.1"
                     /db_xref="GI:153934903"
                     /db_xref="GeneID:5398292"
                     /db_xref="Pathema:CLC_0338"
                     /translation="MFKKIKSLLSNDKSDVQQENLNEVFVSPISGEIISLDDVPDEVF
                     SQRMMGDGFAIQPENGDVFSPVDGTITAVFPTKHAISIKSESGVEILIHFGLDTVNLN
                     GEGFQVYVEEGNQVKAGDMLLKVNIEEIKDKVPSLIVPIIFMDLNGKNFSYNTGKVTA
                     KEPNIITLK"
     misc_feature    323911..324267
                     /locus_tag="CLC_0338"
                     /note="PTS_IIA, PTS system, glucose/sucrose specific IIA
                     subunit. The bacterial phosphoenolpyruvate: sugar
                     phosphotransferase system (PTS) is a multi-protein system
                     involved in the regulation of a variety of metabolic and
                     transcriptional processes. This family...; Region:
                     PTS_IIA_glc; cd00210"
                     /db_xref="CDD:238128"
     misc_feature    order(323959..323970,323980..323985,324049..324054,
                     324058..324063,324079..324087,324103..324111,
                     324115..324117,324127..324129,324133..324138,
                     324172..324174)
                     /locus_tag="CLC_0338"
                     /note="HPr interaction site; other site"
                     /db_xref="CDD:238128"
     misc_feature    order(323959..323961,323965..323970,323974..323976,
                     323980..323985,324052..324054,324058..324060,
                     324070..324072,324109..324111,324115..324117,
                     324127..324129,324133..324138,324142..324144)
                     /locus_tag="CLC_0338"
                     /note="glycerol kinase (GK) interaction site [polypeptide
                     binding]; other site"
                     /db_xref="CDD:238128"
     misc_feature    order(324064..324066,324070..324072,324115..324117,
                     324121..324123)
                     /locus_tag="CLC_0338"
                     /note="active site"
                     /db_xref="CDD:238128"
     misc_feature    324115..324117
                     /locus_tag="CLC_0338"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:238128"
     gene            324631..325392
                     /locus_tag="CLC_0339"
                     /db_xref="GeneID:5401746"
                     /db_xref="Pathema:CLC_0339"
     CDS             324631..325392
                     /locus_tag="CLC_0339"
                     /note="identified by match to protein family HMM PF01380;
                     match to protein family HMM PF01418"
                     /codon_start=1
                     /transl_table=11
                     /product="SIS domain-containing protein"
                     /protein_id="YP_001386234.1"
                     /db_xref="GI:153935850"
                     /db_xref="GeneID:5401746"
                     /db_xref="Pathema:CLC_0339"
                     /translation="MKLDISKIVDKYHLSKVEESILIYIINNIDHVKEIGVRGVAKEH
                     YTSTTTIVNLAKKIGYSGFLDMYYNLSFTLKDKRNYFNSEKNNKYYGVELEELLALIE
                     DKDISDFIDLLIKNKNEVIYTNGLAFSYFIAQYFTRKLIVLGFRCIYSEAYESYDVNA
                     IKAKLLIAISKSGETDFIIRASESAKKNGIKIVSFTGEAENTLAKMSDINFKIYDMHT
                     IDDRNKLSNSFYPNALMLFEFLIGKYLERIKDDSV"
     misc_feature    324643..325386
                     /locus_tag="CLC_0339"
                     /note="Transcriptional regulators [Transcription]; Region:
                     RpiR; COG1737"
                     /db_xref="CDD:224651"
     misc_feature    324646..324825
                     /locus_tag="CLC_0339"
                     /note="Helix-turn-helix domain, rpiR family; Region:
                     HTH_6; pfam01418"
                     /db_xref="CDD:201784"
     misc_feature    324940..325353
                     /locus_tag="CLC_0339"
                     /note="RpiR-like protein. RpiR contains a SIS (Sugar
                     ISomerase) domain, which is found in many phosphosugar
                     isomerases and phosphosugar binding proteins. In E. coli,
                     rpiR negatively regulates the expression of rpiB gene.
                     Both rpiB and rpiA are ribose phosphate...; Region:
                     SIS_RpiR; cd05013"
                     /db_xref="CDD:240144"
     misc_feature    order(325015..325017,325138..325140)
                     /locus_tag="CLC_0339"
                     /note="putative active site [active]"
                     /db_xref="CDD:240144"
     gene            complement(325429..325611)
                     /locus_tag="CLC_0340"
                     /db_xref="GeneID:5400263"
                     /db_xref="Pathema:CLC_0340"
     CDS             complement(325429..325611)
                     /locus_tag="CLC_0340"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386235.1"
                     /db_xref="GI:153936809"
                     /db_xref="GeneID:5400263"
                     /db_xref="Pathema:CLC_0340"
                     /translation="MTLKSTYNYVIKAYGTGKVDHMKQVGCVNDLDKYRQEFHIEFHK
                     NTKLIYSIRLENIPIK"
     gene            325880..326077
                     /locus_tag="CLC_0341"
                     /db_xref="GeneID:5401041"
                     /db_xref="Pathema:CLC_0341"
     CDS             325880..326077
                     /locus_tag="CLC_0341"
                     /note="identified by match to protein family HMM PF00313"
                     /codon_start=1
                     /transl_table=11
                     /product="cold shock protein"
                     /protein_id="YP_001386236.1"
                     /db_xref="GI:153937821"
                     /db_xref="GeneID:5401041"
                     /db_xref="Pathema:CLC_0341"
                     /translation="MNGTVKWFNGEKGFGFITGEDGNDVFAHFSQINSEGYKSLEEGQ
                     KVSYDVVKGPKGPQAENITII"
     misc_feature    325880..326071
                     /locus_tag="CLC_0341"
                     /note="Cold-Shock Protein (CSP) contains an S1-like
                     cold-shock domain (CSD) that is found in eukaryotes,
                     prokaryotes, and archaea.  CSP's include the major
                     cold-shock proteins CspA and CspB in bacteria and the
                     eukaryotic gene regulatory factor Y-box...; Region:
                     CSP_CDS; cd04458"
                     /db_xref="CDD:239905"
     misc_feature    order(325898..325900,325925..325927,325955..325957,
                     326042..326044)
                     /locus_tag="CLC_0341"
                     /note="DNA-binding site [nucleotide binding]; DNA binding
                     site"
                     /db_xref="CDD:239905"
     misc_feature    order(325916..325936,325952..325963)
                     /locus_tag="CLC_0341"
                     /note="RNA-binding motif; other site"
                     /db_xref="CDD:239905"
     gene            326420..326974
                     /locus_tag="CLC_0342"
                     /db_xref="GeneID:5400495"
                     /db_xref="Pathema:CLC_0342"
     CDS             326420..326974
                     /locus_tag="CLC_0342"
                     /note="identified by match to protein family HMM PF06210"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386237.1"
                     /db_xref="GI:153934541"
                     /db_xref="GeneID:5400495"
                     /db_xref="Pathema:CLC_0342"
                     /translation="MDDKNVMSYSKEELIRKILEKDKDLKGSDIDEELFHELISGKIS
                     KNINNTHDNNLTLGQRTADKIATFGGSWTFIITFCVVLSIWIIGNAVILINKAFDPYP
                     FVFLNLILSCLAAIQAPIIMMSQNRQSERDRLTAANDYLVNLKSEIIIEDLYNKIDML
                     IDEQEEYKKNQEILLKKIEELKSN"
     misc_feature    326624..326944
                     /locus_tag="CLC_0342"
                     /note="Protein of unknown function (DUF1003); Region:
                     DUF1003; pfam06210"
                     /db_xref="CDD:148049"
     gene            327409..327840
                     /locus_tag="CLC_0343"
                     /db_xref="GeneID:5400300"
                     /db_xref="Pathema:CLC_0343"
     CDS             327409..327840
                     /locus_tag="CLC_0343"
                     /note="identified by match to protein family HMM PF02082"
                     /codon_start=1
                     /transl_table=11
                     /product="rrf2 family protein"
                     /protein_id="YP_001386238.1"
                     /db_xref="GI:153936117"
                     /db_xref="GeneID:5400300"
                     /db_xref="Pathema:CLC_0343"
                     /translation="MKISSRFSVAVHILSILSMEDKNLCTSEWIAGSVNTNPVVIRRV
                     MGMLKRAGLVNVIAGTGGAYLLKDLDQITLLDVYRAVDVVKEGELFQFHDSPNINCPI
                     GANIQSVMEGVLLNAQEAMEQVLENVTMEYIVTGIRKKIKK"
     misc_feature    327409..327831
                     /locus_tag="CLC_0343"
                     /note="Predicted transcriptional regulator
                     [Transcription]; Region: COG1959"
                     /db_xref="CDD:224870"
     misc_feature    327412..327651
                     /locus_tag="CLC_0343"
                     /note="Transcriptional regulator; Region: Rrf2; pfam02082"
                     /db_xref="CDD:202106"
     gene            327992..328597
                     /locus_tag="CLC_0344"
                     /db_xref="GeneID:5398257"
                     /db_xref="Pathema:CLC_0344"
     CDS             327992..328597
                     /locus_tag="CLC_0344"
                     /note="identified by match to protein family HMM PF01323"
                     /codon_start=1
                     /transl_table=11
                     /product="2-hydroxychromene-2-carboxylate isomerase"
                     /protein_id="YP_001386239.1"
                     /db_xref="GI:153937558"
                     /db_xref="GeneID:5398257"
                     /db_xref="Pathema:CLC_0344"
                     /translation="MSLNIKVYFDFVCPFCFLGEESLSEAIKGKDVNIQWMPFELRPE
                     PSPRIDPWNDPSKLNAWNNFIDPIANKLGIDMKLPKLSPHPYTNLAFEGYHYASDHGK
                     GDEYIKRVFKGFFQEELDIGKIEILANLSEEIGLNKEEFIKVLKNRKYKDKQEKALKH
                     AYEEANITAVPTMIIGDEVVQGNTSKESLEKIINKQLIKNN"
     misc_feature    327992..328576
                     /locus_tag="CLC_0344"
                     /note="Predicted dithiol-disulfide isomerase involved in
                     polyketide biosynthesis [Secondary metabolites
                     biosynthesis, transport, and catabolism]; Region: FrnE;
                     COG2761"
                     /db_xref="CDD:225355"
     misc_feature    328004..328573
                     /locus_tag="CLC_0344"
                     /note="DsbA family, FrnE subfamily; FrnE is a DsbA-like
                     protein containing a CXXC motif. It is presumed to be a
                     thiol oxidoreductase involved in polyketide biosynthesis,
                     specifically in the production of the aromatic antibiotics
                     frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024"
                     /db_xref="CDD:239322"
     misc_feature    order(328028..328030,328037..328039)
                     /locus_tag="CLC_0344"
                     /note="catalytic residues [active]"
                     /db_xref="CDD:239322"
     gene            328624..329262
                     /locus_tag="CLC_0345"
                     /db_xref="GeneID:5400651"
                     /db_xref="Pathema:CLC_0345"
     CDS             328624..329262
                     /locus_tag="CLC_0345"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386240.1"
                     /db_xref="GI:153935039"
                     /db_xref="GeneID:5400651"
                     /db_xref="Pathema:CLC_0345"
                     /translation="MKIALIGSTGNAGKVILKEALSRGHEVIAIARDVSKIKDTNENL
                     TVMQGDILKLDTLGDKLGEVDVLVSAFGPKVGEEDTLIEATNNLITLAKKLGVKRLVV
                     MGGAGSLKVQGDVELVNTEDFPEDWKPIALAHSKSLDIYRNEKEVNWAYLSPAALISS
                     GVRTGEYSVGDEYLVVDEKGESKISFEDFAVAMIDEIENQKHIRSRFTVAYK"
     misc_feature    328627..329250
                     /locus_tag="CLC_0345"
                     /note="biliverdin IX beta reductase (BVR-B, aka flavin
                     reductase)-like proteins; atypical (a) SDRs; Region:
                     BVR-B_like_SDR_a; cd05244"
                     /db_xref="CDD:187555"
     misc_feature    328630..329220
                     /locus_tag="CLC_0345"
                     /note="NADH(P)-binding; Region: NAD_binding_10; pfam13460"
                     /db_xref="CDD:222146"
     misc_feature    order(328642..328644,328648..328659,328717..328719,
                     328729..328731,328774..328776,328831..328839,
                     328864..328866,328930..328938,329023..329025,
                     329083..329091)
                     /locus_tag="CLC_0345"
                     /note="NAD binding site [chemical binding]; other site"
                     /db_xref="CDD:187555"
     misc_feature    order(328843..328848,328936..328944,328951..328953,
                     329002..329004,329011..329016,329023..329025,
                     329083..329091,329167..329169)
                     /locus_tag="CLC_0345"
                     /note="substrate binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:187555"
     misc_feature    order(328864..328866,328936..328938,329011..329013,
                     329023..329025)
                     /locus_tag="CLC_0345"
                     /note="putative active site [active]"
                     /db_xref="CDD:187555"
     gene            329700..330461
                     /locus_tag="CLC_0346"
                     /db_xref="GeneID:5399802"
                     /db_xref="Pathema:CLC_0346"
     CDS             329700..330461
                     /locus_tag="CLC_0346"
                     /note="identified by match to protein family HMM PF01380;
                     match to protein family HMM PF01418"
                     /codon_start=1
                     /transl_table=11
                     /product="transcriptional regulator"
                     /protein_id="YP_001386241.1"
                     /db_xref="GI:153936409"
                     /db_xref="GeneID:5399802"
                     /db_xref="Pathema:CLC_0346"
                     /translation="MDISKFIQNKGLTEIEIEVLNYMIDNINDINKMGVRGVAKNNFT
                     STSTIMRLAKKLGYSGFLEMQYNLLSLTKNELKDNLNDSSFIESLNMDSLLEENSTEA
                     INNFIDILFNDDHKFIFIYANGFSGIVAEYINKKLLVMGKRCILSNGTDSIGVFENNL
                     DFISAIIVISKSGETPMVLNKVKTAKEHNIKVISFTNERENSISKLSDIRFKIKDTNK
                     LDDRNLMPNTFFPKVLVLIELLVYEYYKKKNSNVE"
     misc_feature    329700..>330326
                     /locus_tag="CLC_0346"
                     /note="Transcriptional regulators [Transcription]; Region:
                     RpiR; COG1737"
                     /db_xref="CDD:224651"
     misc_feature    329700..329909
                     /locus_tag="CLC_0346"
                     /note="Helix-turn-helix domain, rpiR family; Region:
                     HTH_6; pfam01418"
                     /db_xref="CDD:201784"
     misc_feature    330000..330359
                     /locus_tag="CLC_0346"
                     /note="RpiR-like protein. RpiR contains a SIS (Sugar
                     ISomerase) domain, which is found in many phosphosugar
                     isomerases and phosphosugar binding proteins. In E. coli,
                     rpiR negatively regulates the expression of rpiB gene.
                     Both rpiB and rpiA are ribose phosphate...; Region:
                     SIS_RpiR; cd05013"
                     /db_xref="CDD:240144"
     misc_feature    order(330075..330077,330207..330209)
                     /locus_tag="CLC_0346"
                     /note="putative active site [active]"
                     /db_xref="CDD:240144"
     gene            330580..332163
                     /locus_tag="CLC_0347"
                     /db_xref="GeneID:5400982"
                     /db_xref="Pathema:CLC_0347"
     CDS             330580..332163
                     /locus_tag="CLC_0347"
                     /note="identified by match to protein family HMM PF00367;
                     match to protein family HMM PF02378; match to protein
                     family HMM TIGR00826"
                     /codon_start=1
                     /transl_table=11
                     /product="PTS system glucose/maltose-specfic transporter
                     subunit IIBC"
                     /protein_id="YP_001386242.1"
                     /db_xref="GI:153937413"
                     /db_xref="GeneID:5400982"
                     /db_xref="Pathema:CLC_0347"
                     /translation="MMKEKILNQLQNFSKGMFVPVLILPIAGIIIAIGNILTNAKLAE
                     YLPFLKNGMVFGLGKMLSGSLVSILTNLGIIFCVGLAVGLSKKKKAEAGFTSLLVFLV
                     FINAMNIFLELNNRLAPQDALRGSGQTMVLGVQVLDMGVFLGIILGIVVAYIHNRFCE
                     KEFDGAFQIYGGSRLVFIILIPITVFLAIILSYVWPSVQYLISSLGNFITGAGNFGIF
                     TYGTLERLLIPTGLHHLVYTPFLYSPLGGVAEIGGKVFEGARNIYFAEMADPNIAKLS
                     ASVIWDARGLSKMFGLIGACLAMYHTALPENKSKIKAILIPAAVTSILAGVTEPIEFS
                     FMFVAPILFVIHAVLSGLGMVVLNILGVTAIGPNGLIDFLLYNIPLGVAKTGWPMFIL
                     IGLGQFVVYYVIFRFLIVKFKLKTPGREEDGNTKLYSKKDYKEKSKANTKSGDSSIAP
                     IVVEGLGGKDNILKVDNCYTRLRLVVKDSSLVNEQLLKNETAANGVIIKGENVQVVYG
                     LKVTSVRKSVDEYLGIESN"
     misc_feature    330688..332148
                     /locus_tag="CLC_0347"
                     /note="bifunctional PTS system maltose and
                     glucose-specific transporter subunits IICB; Provisional;
                     Region: PRK10110"
                     /db_xref="CDD:182245"
     misc_feature    330778..331845
                     /locus_tag="CLC_0347"
                     /note="Phosphotransferase system IIC components,
                     glucose/maltose/N-acetylglucosamine-specific [Carbohydrate
                     transport and metabolism]; Region: PtsG; COG1263"
                     /db_xref="CDD:224183"
     misc_feature    331915..332133
                     /locus_tag="CLC_0347"
                     /note="PTS_IIB, PTS system, glucose/sucrose specific IIB
                     subunit. The bacterial phosphoenolpyruvate: sugar
                     phosphotransferase system (PTS) is a multi-protein system
                     involved in the regulation of a variety of metabolic and
                     transcriptional processes. This family...; Region:
                     PTS_IIB_glc; cd00212"
                     /db_xref="CDD:238130"
     misc_feature    331978..331998
                     /locus_tag="CLC_0347"
                     /note="active site turn [active]"
                     /db_xref="CDD:238130"
     misc_feature    331981..331983
                     /locus_tag="CLC_0347"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:238130"
     gene            332425..333759
                     /gene="glvA-3"
                     /locus_tag="CLC_0348"
                     /db_xref="GeneID:5401275"
                     /db_xref="Pathema:CLC_0348"
     CDS             332425..333759
                     /gene="glvA-3"
                     /locus_tag="CLC_0348"
                     /EC_number="3.2.1.122"
                     /note="identified by match to protein family HMM PF02056"
                     /codon_start=1
                     /transl_table=11
                     /product="maltose-6'-phosphate glucosidase"
                     /protein_id="YP_001386243.1"
                     /db_xref="GI:153937411"
                     /db_xref="GeneID:5401275"
                     /db_xref="Pathema:CLC_0348"
                     /translation="MEQNKKFSIVIAGGGSTFTPGIVMMLLDNIHRFPLRKLKLYDND
                     GKRQETIGKALKILLKENAPEIEFTYTTDPKEAFTDVDFCMAHIRVGKYEMREKDEKI
                     PLKYGVIGQETCGPGGIAYGMRSIGGMMELIDIMEKYSPNCWMLNYSNPAAIVAEACR
                     ILKPNSKVLNICDMPVGTLRRMSQIVGLTPKDLEVNYFGLNHFGWWTSVRDKQGNDLM
                     PKLKAYVAENGYLNKVEVDTQHTEPSWQETHKKAKDLLAVEPNFLPNTYLKYYLYPDY
                     VVEHSNAEYTRANEVMNGREKSVFSAAKEIIKAGTAKGGEFHIDSHASFIVDLARAIA
                     YNTHERMLCIVENNGAIENFDPTAMVEVPCIVGSNGPEALVQGKIPQFEKGLMEQQVS
                     VEKLVVESWIEGSYQKLWQALTLSKTVPSASVAKAILDDLIEANKNYWPELK"
     misc_feature    332437..333756
                     /gene="glvA-3"
                     /locus_tag="CLC_0348"
                     /note="Alpha-galactosidases/6-phospho-beta-glucosidases,
                     family 4 of glycosyl hydrolases [Carbohydrate transport
                     and metabolism]; Region: CelF; COG1486"
                     /db_xref="CDD:224403"
     misc_feature    332443..333756
                     /gene="glvA-3"
                     /locus_tag="CLC_0348"
                     /note="Glycoside Hydrolases Family 4; GlvA- and pagL-like
                     glycosidases; Region: GH4_GlvA_pagL_like; cd05298"
                     /db_xref="CDD:133434"
     misc_feature    order(332467..332478,332548..332553,332683..332691,
                     332701..332703,332758..332760,332785..332787,
                     332866..332868,332872..332874,332935..332943,
                     333307..333309)
                     /gene="glvA-3"
                     /locus_tag="CLC_0348"
                     /note="NAD binding site [chemical binding]; other site"
                     /db_xref="CDD:133434"
     misc_feature    order(332710..332712,332758..332760,332872..332874,
                     332938..332946,333028..333030,333223..333225,
                     333283..333285,333307..333309)
                     /gene="glvA-3"
                     /locus_tag="CLC_0348"
                     /note="sugar binding site [chemical binding]; other site"
                     /db_xref="CDD:133434"
     misc_feature    order(332938..332940,333028..333030)
                     /gene="glvA-3"
                     /locus_tag="CLC_0348"
                     /note="divalent metal binding site [ion binding]; other
                     site"
                     /db_xref="CDD:133434"
     misc_feature    order(332995..332997,333004..333006,333052..333054,
                     333064..333066,333430..333432,333466..333468,
                     333523..333528,333532..333534,333538..333549)
                     /gene="glvA-3"
                     /locus_tag="CLC_0348"
                     /note="putative tetramer (dimer of dimers) interface
                     [polypeptide binding]; other site"
                     /db_xref="CDD:133434"
     misc_feature    order(333202..333204,333238..333240,333562..333567,
                     333577..333579,333586..333588,333598..333600,
                     333607..333609,333619..333621,333637..333639,
                     333643..333645,333652..333657,333664..333669,
                     333682..333684,333688..333690,333694..333696,
                     333700..333702)
                     /gene="glvA-3"
                     /locus_tag="CLC_0348"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:133434"
     gene            333772..334245
                     /locus_tag="CLC_0349"
                     /db_xref="GeneID:5401320"
                     /db_xref="Pathema:CLC_0349"
     CDS             333772..334245
                     /locus_tag="CLC_0349"
                     /note="identified by match to protein family HMM PF00358;
                     match to protein family HMM TIGR00830"
                     /codon_start=1
                     /transl_table=11
                     /product="PTS system glucose/maltose-specific transporter
                     subunit IIA"
                     /protein_id="YP_001386244.1"
                     /db_xref="GI:153934685"
                     /db_xref="GeneID:5401320"
                     /db_xref="Pathema:CLC_0349"
                     /translation="MFQIFKKKKLYSPLSGKSVALSNVQDEVFSSLMMGDGIAIDPMD
                     QVIVAPCDCLVKLIMKGSKHALGLLMNNGVEILIHVGIDTVSLEGEGFEVLVEEGQKV
                     KLGTPLLKFDKDYIISKGYSPMTMMIITEPNGSNINKKYEDITVEGGKTPVIEFS"
     misc_feature    333787..334233
                     /locus_tag="CLC_0349"
                     /note="Phosphotransferase system IIA components
                     [Carbohydrate transport and metabolism]; Region: NagE;
                     COG2190"
                     /db_xref="CDD:225101"
     misc_feature    order(333847..333858,333868..333873,333937..333942,
                     333946..333951,333970..333978,333994..334002,
                     334006..334008,334018..334020,334024..334029,
                     334063..334065,334159..334161)
                     /locus_tag="CLC_0349"
                     /note="HPr interaction site; other site"
                     /db_xref="CDD:238128"
     misc_feature    order(333847..333849,333853..333858,333862..333864,
                     333868..333873,333940..333942,333946..333948,
                     333961..333963,334000..334002,334006..334008,
                     334018..334020,334024..334029,334033..334035,
                     334159..334161)
                     /locus_tag="CLC_0349"
                     /note="glycerol kinase (GK) interaction site [polypeptide
                     binding]; other site"
                     /db_xref="CDD:238128"
     misc_feature    order(333955..333957,333961..333963,334006..334008,
                     334012..334014)
                     /locus_tag="CLC_0349"
                     /note="active site"
                     /db_xref="CDD:238128"
     misc_feature    334006..334008
                     /locus_tag="CLC_0349"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:238128"
     gene            334383..336098
                     /gene="ilvD"
                     /locus_tag="CLC_0350"
                     /db_xref="GeneID:5401129"
                     /db_xref="Pathema:CLC_0350"
     CDS             334383..336098
                     /gene="ilvD"
                     /locus_tag="CLC_0350"
                     /EC_number="4.2.1.9"
                     /note="identified by match to protein family HMM PF00920"
                     /codon_start=1
                     /transl_table=11
                     /product="dihydroxy-acid dehydratase"
                     /protein_id="YP_001386245.1"
                     /db_xref="GI:153936055"
                     /db_xref="GeneID:5401129"
                     /db_xref="Pathema:CLC_0350"
                     /translation="MISQDIRKIAPEMDPLRRGMGWSVEDLSKPQIIVESTFGDSHPG
                     SAHLIKFANNAVQGVAERGGKAARYFATDICDGMAQGHDGINYSLASRDTITSLIEIH
                     ANATPFDGGVFISSCDKAVPSHLMAIGRLNIPSIVVTGGVMEAGPNLLTLEQIGAYSA
                     MYQRKEITEEELTYYKHNACPSCGACSFMGTASTMQVMAEALGLMLPGSALMPATCKD
                     LEDVAVEAGKQVVELAKMNLKPKDIVTEKSFENAIIIHAAISGSTNSLLHIPAIAHEF
                     GIKIDEESFDRIHRYAPYLLNIRPAGKWPAEYFYYAGGVPAIMEEVKHLLHLDVMTVT
                     GKTLGENLEDLKKNGYYKNCDKYLKKVGLTRRDVIKPISEPIGENGAIAILKGNIAPE
                     GAVVKHSAVPEEMHKGILKARPFDSEEEAISAIISKKINPGDAVFIRYEGPKGSGMPE
                     MFYTTEAISSDKELSASIALITDGRFSGASKGPAIGHVSPEAAMGGPIALVEENDLIE
                     IDIEKRILQLVGVNGQKLSEEAIDKVLVERKAKWEKRENKYKSGILKIFSERAVSPMK
                     GGYME"
     misc_feature    334467..336086
                     /gene="ilvD"
                     /locus_tag="CLC_0350"
                     /note="Dehydratase family; Region: ILVD_EDD; pfam00920"
                     /db_xref="CDD:216192"
     gene            336150..336797
                     /gene="eda"
                     /locus_tag="CLC_0351"
                     /db_xref="GeneID:5399432"
                     /db_xref="Pathema:CLC_0351"
     CDS             336150..336797
                     /gene="eda"
                     /locus_tag="CLC_0351"
                     /EC_number="4.1.2.14"
                     /EC_number="4.1.3.16"
                     /note="identified by match to protein family HMM PF01081;
                     match to protein family HMM TIGR01182"
                     /codon_start=1
                     /transl_table=11
                     /product="2-dehydro-3-deoxyphosphogluconate aldolase"
                     /protein_id="YP_001386246.1"
                     /db_xref="GI:153936859"
                     /db_xref="GeneID:5399432"
                     /db_xref="Pathema:CLC_0351"
                     /translation="MIKMKVLNALKKCKIVAVVRGETKEVGIKISESCIKGNVKAIEV
                     AYTNKFANDIIEELSEKYSKDDEVVIGAGTVLDSETARMAILRGAKYIVSPSFSEETA
                     KICNRYNIPYIPGVMTITEIVTAYESGVDIVKVFPGSAFGQGYIKSIKGPLPYANIMV
                     TGGVNLDNIDSWANTSVDLVGIGGELNKLGELGKFDEIELICNQYVDKFNKARGI"
     misc_feature    336150..336689
                     /gene="eda"
                     /locus_tag="CLC_0351"
                     /note="2-keto-3-deoxy-6-phosphogluconate aldolase
                     [Carbohydrate transport and metabolism]; Region: Eda;
                     COG0800"
                     /db_xref="CDD:223871"
     misc_feature    336177..336665
                     /gene="eda"
                     /locus_tag="CLC_0351"
                     /note="KDPG and KHG aldolase; Region: KDPG_aldolase;
                     cd00452"
                     /db_xref="CDD:188632"
     misc_feature    order(336201..336203,336276..336278,336288..336290,
                     336369..336371,336549..336551,336555..336557,
                     336630..336632)
                     /gene="eda"
                     /locus_tag="CLC_0351"
                     /note="active site"
                     /db_xref="CDD:188632"
     misc_feature    order(336288..336290,336369..336371,336375..336377,
                     336432..336443,336501..336512,336516..336518,
                     336528..336530,336555..336560,336591..336593,
                     336603..336608)
                     /gene="eda"
                     /locus_tag="CLC_0351"
                     /note="intersubunit interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:188632"
     misc_feature    336549..336551
                     /gene="eda"
                     /locus_tag="CLC_0351"
                     /note="catalytic residue [active]"
                     /db_xref="CDD:188632"
     gene            336799..337803
                     /locus_tag="CLC_0352"
                     /db_xref="GeneID:5400781"
                     /db_xref="Pathema:CLC_0352"
     CDS             336799..337803
                     /locus_tag="CLC_0352"
                     /note="identified by match to protein family HMM PF00294"
                     /codon_start=1
                     /transl_table=11
                     /product="2-dehydro-3-deoxygluconokinase"
                     /protein_id="YP_001386247.1"
                     /db_xref="GI:153937236"
                     /db_xref="GeneID:5400781"
                     /db_xref="Pathema:CLC_0352"
                     /translation="MKVVGFGEILLRLSTKKGMLFLNSKEFDSNYGGGEANVLISLSR
                     FDIETRMITKISKDQIGEGIINYLKEKSVETSFIKRENKRTPIYFVEVGSGNRSSKII
                     YDRDNSAFGSITEEDINIKEALKDVDVFHFSGITLAISEEVRKVTLNILKYCKNNNIL
                     VSYDSNYRAKMWSLEEARKATKEILPYINIFSAGILDAENILDMSCDLEDKYEKLNYY
                     YKEITKAYPNIKHIFSSTREIKSVSANSLQCNYYTNNKLYSSKKHTFDDIIDRIGAGD
                     ALTAGVIYSIINKKSPQYTCEFATACSVLKHSIHGDANLVNVEEVENLISNGIGRISR
                     "
     misc_feature    336802..337737
                     /locus_tag="CLC_0352"
                     /note="2-keto-3-deoxygluconate kinase (KdgK)
                     phosphorylates 2-keto-3-deoxygluconate (KDG) to form
                     2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the
                     common intermediate product, that allows organisms to
                     channel D-glucuronate and/or D-galacturinate into the...;
                     Region: KdgK; cd01166"
                     /db_xref="CDD:238571"
     misc_feature    336802..337734
                     /locus_tag="CLC_0352"
                     /note="Sugar kinases, ribokinase family [Carbohydrate
                     transport and metabolism]; Region: RbsK; COG0524"
                     /db_xref="CDD:223598"
     misc_feature    order(336895..336900,336907..336909,337060..337062,
                     337105..337107,337111..337113,337201..337203,
                     337300..337302,337612..337614,337621..337623,
                     337732..337734)
                     /locus_tag="CLC_0352"
                     /note="substrate binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:238571"
     misc_feature    order(337516..337518,337531..337533,337585..337587,
                     337612..337620,337627..337629,337696..337698,
                     337708..337710)
                     /locus_tag="CLC_0352"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:238571"
     gene            338063..339862
                     /gene="ade"
                     /locus_tag="CLC_0353"
                     /db_xref="GeneID:5401557"
     CDS             338063..339862
                     /gene="ade"
                     /locus_tag="CLC_0353"
                     /EC_number="3.5.4.2"
                     /note="identified by match to protein family HMM PF01979;
                     match to protein family HMM TIGR01178"
                     /codon_start=1
                     /transl_table=11
                     /product="adenine deaminase"
                     /protein_id="YP_001386248.2"
                     /db_xref="GI:532643393"
                     /db_xref="GeneID:5401557"
                     /translation="MFNKFDTKPLWEVSKTLSSVAQGLEPADMVIINSRLINVCTREV
                     IENTDVAISCGRIALVGDAKHCIGENTEVIDAKGQYIAPGFLDGHIHVESSMLSVSEY
                     ARSVVPHGTVGIYMDPHEICNVLGLNGVRYMIEDGKGTPLKNMVTTPSCVPAVPGFED
                     TGAAVGPEDVRETMKWDEIVGLGEMMNFPGILYSTDHAHGVVGETLKASKTVTGHYSL
                     PETGKGLNGYIASGVRCCHESTRAEDALAKMRLGMYAMFREGSAWHDLKEVSKAITEN
                     KVDSRFAVLISDDTHPHTLLKDGHLDHIIKRAIEEGIEPLTAIQMVTINCAQCFQMDH
                     ELGSITPGKCADIVFIEDLKDVKITKVIIDGNLVAKGGLLTTSIAKYDYPEDAMNSMH
                     IKNKITPDSFNIMAPNKEKITARVIEIIPERVGTYERHVELNVKDDKVQCDPSKDVLK
                     AVVFERHHETGTAGYGFVKGFGIKRGAMAATVAHDAHNLLVIGTNDEDMALAANTLIE
                     CGGGMVAVQDGKVLGLVPLPIAGLMSNKPLEEMAEMVEKLDSAWKEIGCDIVSPFMTM
                     ALIPLACLPELRLTNRGLVDCNKFEFVSLFVEE"
     misc_feature    338120..339853
                     /gene="ade"
                     /locus_tag="CLC_0353"
                     /note="Adenine deaminase [Nucleotide transport and
                     metabolism]; Region: AdeC; COG1001"
                     /db_xref="CDD:223933"
     misc_feature    338207..>338338
                     /gene="ade"
                     /locus_tag="CLC_0353"
                     /note="Superfamily of metallo-dependent hydrolases (also
                     called amidohydrolase superfamily) is a large group of
                     proteins that show conservation in their 3-dimensional
                     fold (TIM barrel) and in details of their active site. The
                     vast majority of the members have a...; Region:
                     metallo-dependent_hydrolases; cl00281"
                     /db_xref="CDD:241750"
     misc_feature    338285..339319
                     /gene="ade"
                     /locus_tag="CLC_0353"
                     /note="Adenine deaminase (AdeC) directly deaminates
                     adenine to form hypoxanthine. This reaction is part of one
                     of the adenine salvage pathways, as well as the
                     degradation pathway. It is important for adenine
                     utilization as a purine, as well as a nitrogen source...;
                     Region: AdeC; cd01295"
                     /db_xref="CDD:238620"
     misc_feature    order(338327..338329,338333..338335,338705..338707,
                     338771..338773,338924..338926)
                     /gene="ade"
                     /locus_tag="CLC_0353"
                     /note="active site"
                     /db_xref="CDD:238620"
     misc_feature    339338..339838
                     /gene="ade"
                     /locus_tag="CLC_0353"
                     /note="Adenine deaminase C-terminal domain; Region:
                     Adenine_deam_C; pfam13382"
                     /db_xref="CDD:222089"
     gene            340264..340941
                     /locus_tag="CLC_0354"
                     /db_xref="GeneID:5400658"
                     /db_xref="Pathema:CLC_0354"
     CDS             340264..340941
                     /locus_tag="CLC_0354"
                     /note="identified by match to protein family HMM PF00072;
                     match to protein family HMM PF00486"
                     /codon_start=1
                     /transl_table=11
                     /product="DNA-binding response regulator"
                     /protein_id="YP_001386249.1"
                     /db_xref="GI:153935658"
                     /db_xref="GeneID:5400658"
                     /db_xref="Pathema:CLC_0354"
                     /translation="MGRKVYLVEDEKSLNILLEKYLQREGYEVTTFFNGSSAIEKIKD
                     VPDIWILDIMLPDIDGYQIIKAVKENNKSTPVIFMSARNEELDRVVGLELGSDDYLSK
                     PFLPRELIIRTNKLMERIYGKSNNSTVDIITNIGQYKISKKQRTVFFEEKEIQLTNKE
                     FELLNFFIENKNNVISREQILISIWGEDYFGSDRVIDDTIRRLRKKMDKLDLETVYGY
                     GYKLVVK"
     misc_feature    340273..340938
                     /locus_tag="CLC_0354"
                     /note="Response regulators consisting of a CheY-like
                     receiver domain and a winged-helix DNA-binding domain
                     [Signal transduction mechanisms / Transcription]; Region:
                     OmpR; COG0745"
                     /db_xref="CDD:223816"
     misc_feature    340282..340614
                     /locus_tag="CLC_0354"
                     /note="Signal receiver domain; originally thought to be
                     unique to bacteria (CheY, OmpR, NtrC, and PhoB), now
                     recently identified in eukaroytes ETR1 Arabidopsis
                     thaliana; this domain receives the signal from the sensor
                     partner in a two-component systems; Region: REC; cd00156"
                     /db_xref="CDD:238088"
     misc_feature    order(340288..340293,340417..340419,340441..340443,
                     340501..340503,340558..340560,340567..340572)
                     /locus_tag="CLC_0354"
                     /note="active site"
                     /db_xref="CDD:238088"
     misc_feature    340417..340419
                     /locus_tag="CLC_0354"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:238088"
     misc_feature    order(340426..340431,340435..340443)
                     /locus_tag="CLC_0354"
                     /note="intermolecular recognition site; other site"
                     /db_xref="CDD:238088"
     misc_feature    340567..340575
                     /locus_tag="CLC_0354"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238088"
     misc_feature    340666..340929
                     /locus_tag="CLC_0354"
                     /note="Effector domain of response regulator. Bacteria and
                     certain eukaryotes like protozoa and higher plants use
                     two-component signal transduction systems to detect and
                     respond to changes in the environment. The system consists
                     of a sensor histidine kinase and...; Region: trans_reg_C;
                     cd00383"
                     /db_xref="CDD:238225"
     misc_feature    order(340732..340734,340789..340794,340846..340848,
                     340855..340857,340879..340884,340903..340905,
                     340918..340920)
                     /locus_tag="CLC_0354"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238225"
     gene            340941..342326
                     /locus_tag="CLC_0355"
                     /db_xref="GeneID:5400042"
                     /db_xref="Pathema:CLC_0355"
     CDS             340941..342326
                     /locus_tag="CLC_0355"
                     /note="identified by match to protein family HMM PF00512;
                     match to protein family HMM PF00672; match to protein
                     family HMM PF02518"
                     /codon_start=1
                     /transl_table=11
                     /product="sensor histidine kinase"
                     /protein_id="YP_001386250.1"
                     /db_xref="GI:153936434"
                     /db_xref="GeneID:5400042"
                     /db_xref="Pathema:CLC_0355"
                     /translation="MKRLRFKSLTMRIWTTFTAIILIIICSISFLYLVAFKRISENSR
                     LEDLKVAHDVLLNSNNFNEQNRFDELKNLKGSDHFIVKIDGNDKYKIIDIGKRKEEPP
                     PIEKKNPPPGPASDGIKMWMASYIIGNNIQQKQFKEYHNNMKFIFIISSIKNTGGEKL
                     YLISYIPEIQDNVLLYTVIIIGIIFIGIGFFTAKLVVNYISKPLRELEDYTVKIAHKD
                     WREPVKIKNDDEIGRLVDSMNRMQKELKKIDEEEKMFLQSISHDLKTPVMVIMSHAQA
                     IIDGMYIESVEETAEIIKDEAAILEKKIKQLLYLNTLAYTLENDSENIGFELHNLLFN
                     IISRFEIVNSKIQWNLDIDKVVIKGNAEKIQVAIENILDNGLRYAEREIAITLKKENS
                     VAVLEIYNDGPNIDKNNIEHIFENLYKDRTGNFGLGLAISKKIIDFYNGEIKAVNRDN
                     GVSFIIKYPID"
     misc_feature    341523..342320
                     /locus_tag="CLC_0355"
                     /note="Signal transduction histidine kinase [Signal
                     transduction mechanisms]; Region: BaeS; COG0642"
                     /db_xref="CDD:223715"
     misc_feature    341538..341681
                     /locus_tag="CLC_0355"
                     /note="Histidine kinase, Adenylyl cyclase,
                     Methyl-accepting protein, and Phosphatase (HAMP) domain.
                     HAMP is a signaling domain which occurs in a wide variety
                     of signaling proteins, many of which are bacterial. The
                     HAMP domain consists of two alpha helices...; Region:
                     HAMP; cd06225"
                     /db_xref="CDD:100122"
     misc_feature    order(341538..341543,341550..341555,341559..341564,
                     341571..341576,341580..341582,341628..341633,
                     341637..341642,341649..341654,341658..341663,
                     341670..341675)
                     /locus_tag="CLC_0355"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:100122"
     misc_feature    341685..341870
                     /locus_tag="CLC_0355"
                     /note="Histidine Kinase A (dimerization/phosphoacceptor)
                     domain; Histidine Kinase A dimers are formed through
                     parallel association of 2 domains creating 4-helix
                     bundles; usually these domains contain a conserved His
                     residue and are activated via...; Region: HisKA; cd00082"
                     /db_xref="CDD:119399"
     misc_feature    order(341703..341705,341715..341717,341727..341729,
                     341736..341738,341748..341750,341757..341759,
                     341805..341807,341817..341819,341826..341828,
                     341838..341840,341847..341849,341859..341861)
                     /locus_tag="CLC_0355"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:119399"
     misc_feature    341721..341723
                     /locus_tag="CLC_0355"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:119399"
     misc_feature    342030..342311
                     /locus_tag="CLC_0355"
                     /note="Histidine kinase-like ATPases; This family includes
                     several ATP-binding proteins for example: histidine
                     kinase, DNA gyrase B, topoisomerases, heat shock protein
                     HSP90, phytochrome-like ATPases and DNA mismatch repair
                     proteins; Region: HATPase_c; cd00075"
                     /db_xref="CDD:238030"
     misc_feature    order(342048..342050,342060..342062,342069..342071,
                     342132..342134,342138..342140,342144..342146,
                     342150..342155,342216..342227,342273..342275,
                     342279..342281,342291..342296,342300..342302)
                     /locus_tag="CLC_0355"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    342060..342062
                     /locus_tag="CLC_0355"
                     /note="Mg2+ binding site [ion binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    order(342144..342146,342150..342152,342216..342218,
                     342222..342224)
                     /locus_tag="CLC_0355"
                     /note="G-X-G motif; other site"
                     /db_xref="CDD:238030"
     gene            342723..343691
                     /locus_tag="CLC_0356"
                     /db_xref="GeneID:5401801"
                     /db_xref="Pathema:CLC_0356"
     CDS             342723..343691
                     /locus_tag="CLC_0356"
                     /EC_number="2.4.1.-"
                     /note="identified by match to protein family HMM PF00535"
                     /codon_start=1
                     /transl_table=11
                     /product="glycosyl transferase family protein"
                     /protein_id="YP_001386251.1"
                     /db_xref="GI:153936733"
                     /db_xref="GeneID:5401801"
                     /db_xref="Pathema:CLC_0356"
                     /translation="MINKIVYSIIVPLYNEELVIDESYRRLKAVMDSTKENYEIIFIN
                     DGSRDSTKEKADNICKKDEKIKLVNFSRNFGHQAAITAGMDVSRGRAIVVIDADLQDP
                     PEVILKMIEKWKDGYEVIYGKRAKREGEGFFKKFTAGMFYRLLKNITNIDIPVDTGDF
                     RLIDRKVCDTLTSLPEKNRYVRGLVSWVGYKQTAVEFVRQERFAGETKYPLKKMLKLA
                     FDGITSFSYKPLTVASYVGGIIFSIGTIVFITEIIKAVINCTDILSLGMILSINLIMF
                     GLIFFTIGIMGQYIGRIFDESKNRPMYIIDNTINYEKADKKYEINN"
     misc_feature    342726..343679
                     /locus_tag="CLC_0356"
                     /note="undecaprenyl phosphate
                     4-deoxy-4-formamido-L-arabinose transferase; Provisional;
                     Region: PRK10714"
                     /db_xref="CDD:182669"
     misc_feature    342747..343292
                     /locus_tag="CLC_0356"
                     /note="Bacterial DPM1_like enzymes are related to
                     eukaryotic DPM1; Region: DPM1_like_bac; cd04187"
                     /db_xref="CDD:133030"
     misc_feature    order(342756..342758,342762..342764,343014..343016)
                     /locus_tag="CLC_0356"
                     /note="Ligand binding site; other site"
                     /db_xref="CDD:133030"
     misc_feature    order(342855..342857,343011..343016)
                     /locus_tag="CLC_0356"
                     /note="Putative Catalytic site; other site"
                     /db_xref="CDD:133030"
     misc_feature    343008..343016
                     /locus_tag="CLC_0356"
                     /note="DXD motif; other site"
                     /db_xref="CDD:133030"
     gene            343675..344094
                     /locus_tag="CLC_0357"
                     /db_xref="GeneID:5401048"
                     /db_xref="Pathema:CLC_0357"
     CDS             343675..344094
                     /locus_tag="CLC_0357"
                     /note="identified by match to protein family HMM PF04138"
                     /codon_start=1
                     /transl_table=11
                     /product="cell wall teichoic acid glycosylation protein
                     GtcA"
                     /protein_id="YP_001386252.1"
                     /db_xref="GI:153937569"
                     /db_xref="GeneID:5401048"
                     /db_xref="Pathema:CLC_0357"
                     /translation="MKLITKVNKCIFHGKFKHISRFSMVGVANTTIDFLMFTVFNELV
                     GVEYITSQIIGYSFGIMNSFIFNKKWTFKERKVSKKVLYELMQFIIINLISLIITVFV
                     MNLLTKNFNINVYLAKVIVTIIAQATNFVAYKFIVFK"
     misc_feature    343717..344091
                     /locus_tag="CLC_0357"
                     /note="Predicted membrane protein [Function unknown];
                     Region: COG2246"
                     /db_xref="CDD:225155"
     misc_feature    343735..344088
                     /locus_tag="CLC_0357"
                     /note="GtrA-like protein; Region: GtrA; pfam04138"
                     /db_xref="CDD:217921"
     gene            344213..346486
                     /locus_tag="CLC_0358"
                     /db_xref="GeneID:5400423"
                     /db_xref="Pathema:CLC_0358"
     CDS             344213..346486
                     /locus_tag="CLC_0358"
                     /note="identified by match to protein family HMM PF02366"
                     /codon_start=1
                     /transl_table=11
                     /product="dolichyl-phosphate-mannose-protein
                     mannosyltransferase"
                     /protein_id="YP_001386253.1"
                     /db_xref="GI:153935234"
                     /db_xref="GeneID:5400423"
                     /db_xref="Pathema:CLC_0358"
                     /translation="MKKIKFTKENIALSLILILSLILNLANLNIEGYANQYYAAGVKS
                     MTLSLKNFFFISFDPASFVSIDKPPLGFWIQAIFAKIFGFSGWSIILPQAIAGVVSVG
                     LIYVIVKRRFGTAAGLISAICLAVTPVFVAVSRNNTCDNLLVLTLLLACLVLSKAAEK
                     GKLKYLLISLAIIGIGFNIKMLQAYMIIPAIYITYLLSNAVSFKKRIVHLMAGTIILI
                     LVSLSWAFIVDLIPEGNRPYVGSSTNNSVMELIIGHNGLERLGIGSKSTQGGGAPGGM
                     DGKNQQKTDGTSSATKNKNSEQTSKENGQTGGETPSIDNDQMQGQPPSMDNGEMQGAP
                     PNTQDGGKGNANPPNGDGKGPGGMPPGDNGIQKPNGGGMGGTFGGQEVASIARLFSNN
                     SLSDQIIWLFPLAVFGFIAAAIKEKLNKTSDNKRKLSLVLWSMWLLPEFIYFSFTKGL
                     FHPYYLTMLAPPISALVGIGVVSMWKLYNENGWKSWILPVALIADGLTQILILSYYYN
                     ISNTAKILTTIVAVLCIVVSIVLSIINLSKNKKGILKFRNIKLKKSLVTIALMGLLIT
                     PLVCSTTTIFYPVSGTFPSAGLSLMTNKQKDGFNMGDPNSGNTKLIEFLKSHKTNEKY
                     LLVTSSTNGYASDIIINTGESVMALGGFFGTDKVIDLDEFKKLVNNGEIRYVMVGGMG
                     GNSSSDIMNWVKENGKVVSESEWKDSNEINSEEVNKDNNNKENSNSNTKQFGQEGKGN
                     SEQLYDLKNYTDTTTKK"
     misc_feature    344309..>344932
                     /locus_tag="CLC_0358"
                     /note="4-amino-4-deoxy-L-arabinose transferase and related
                     glycosyltransferases of PMT family [Cell envelope
                     biogenesis, outer membrane]; Region: ArnT; COG1807"
                     /db_xref="CDD:224720"
     misc_feature    344408..344884
                     /locus_tag="CLC_0358"
                     /note="Dolichyl-phosphate-mannose-protein
                     mannosyltransferase; Region: PMT_2; pfam13231"
                     /db_xref="CDD:221995"
     misc_feature    <345371..346327
                     /locus_tag="CLC_0358"
                     /note="4-amino-4-deoxy-L-arabinose transferase and related
                     glycosyltransferases of PMT family [Cell envelope
                     biogenesis, outer membrane]; Region: ArnT; COG1807"
                     /db_xref="CDD:224720"
     gene            346827..347864
                     /locus_tag="CLC_0359"
                     /db_xref="GeneID:5401297"
                     /db_xref="Pathema:CLC_0359"
     CDS             346827..347864
                     /locus_tag="CLC_0359"
                     /note="identified by match to protein family HMM PF00165"
                     /codon_start=1
                     /transl_table=11
                     /product="AraC family transcriptional regulator"
                     /protein_id="YP_001386254.1"
                     /db_xref="GI:153935953"
                     /db_xref="GeneID:5401297"
                     /db_xref="Pathema:CLC_0359"
                     /translation="MKHKFHINTKQGCSSMIMQYSSIRTQFATIRDSMNFNDEKEVIY
                     DIKPQYGKGCIKFYKLMGNVMLIIYDTIFNHDMITEFDLSEEYFEIEYCVDGCLNIHE
                     DKVGNMCLSKNELSISMSRETCGKVINCAGQKYQGISITAEKSAIASYFGSCGIELWE
                     DTIEELENELRNQYYQGINVSPEIANIFLQIFNCSLPEKSKILFFESKVMEILSKIVS
                     YEILGTNKINQLQLDEFEINQIKKIPEVLMKNLYELPTVNILSKQLAINKNKLAKGFK
                     AIYGDTIFRYHRKMCLERAAILLLDTDKSINEIALDVGYSNPSNFCYAFKKEFGVTPL
                     QYKDYSLKLVN"
     misc_feature    347589..347837
                     /locus_tag="CLC_0359"
                     /note="helix_turn_helix, arabinose operon control protein;
                     Region: HTH_ARAC; smart00342"
                     /db_xref="CDD:197666"
     misc_feature    347724..347834
                     /locus_tag="CLC_0359"
                     /note="Bacterial regulatory helix-turn-helix proteins,
                     AraC family; Region: HTH_AraC; pfam00165"
                     /db_xref="CDD:215763"
     gene            348128..349159
                     /locus_tag="CLC_0360"
                     /db_xref="GeneID:5399837"
                     /db_xref="Pathema:CLC_0360"
     CDS             348128..349159
                     /locus_tag="CLC_0360"
                     /note="identified by match to protein family HMM PF01497"
                     /codon_start=1
                     /transl_table=11
                     /product="iron ABC transporter substrate-binding protein"
                     /protein_id="YP_001386255.1"
                     /db_xref="GI:153935323"
                     /db_xref="GeneID:5399837"
                     /db_xref="Pathema:CLC_0360"
                     /translation="MLKKCVALFIGVIFILGLVGCSQSTQGQNGKGKTIGEQEQKQNK
                     SKSNYPVNIKVYTDEGKEIVQTIQKEPKRVVIMGQSMAELMIKFGLQDKVVGVGYLDK
                     SFSKYDDEISKMPIIAKSWPSKEAIIALKPDIIYSMSSAFKEDRVGDIYSWNDRGIPV
                     LPAVNFTIGRSIDEYFKDIKNFGLAFNIENETNKYLKEQKDRMDKVKEVAKKAKTTPN
                     VLLVASAGRENYDYYPPSGCIIDEVIEGAGGKYIELSKDSYMEMSIESIIAANPEKII
                     ITEFQGSDREKIKNKILSNKRLQNVIAIKTGNVMVVDYTNAIRGSLELSDLYEDVAKF
                     IHPELFGGN"
     misc_feature    348149..349147
                     /locus_tag="CLC_0360"
                     /note="ABC-type Fe3+-hydroxamate transport system,
                     periplasmic component [Inorganic ion transport and
                     metabolism]; Region: FepB; COG0614"
                     /db_xref="CDD:223687"
     misc_feature    348293..349072
                     /locus_tag="CLC_0360"
                     /note="Helical backbone metal receptor (TroA-like domain).
                     These proteins have been shown to function in the ABC
                     transport of ferric siderophores and metal ions such as
                     Mn2+, Fe3+, Cu2+ and/or Zn2+.  Their ligand binding site
                     is formed in the interface between...; Region: TroA-like;
                     cl00262"
                     /db_xref="CDD:241735"
     misc_feature    order(348578..348583,348590..348592,348677..348679)
                     /locus_tag="CLC_0360"
                     /note="intersubunit interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238347"
     gene            349162..350280
                     /locus_tag="CLC_0361"
                     /db_xref="GeneID:5399514"
                     /db_xref="Pathema:CLC_0361"
     CDS             349162..350280
                     /locus_tag="CLC_0361"
                     /note="identified by match to protein family HMM PF01032"
                     /codon_start=1
                     /transl_table=11
                     /product="iron ABC transporter permease"
                     /protein_id="YP_001386256.1"
                     /db_xref="GI:153936012"
                     /db_xref="GeneID:5399514"
                     /db_xref="Pathema:CLC_0361"
                     /translation="MLQTGKVGVAESNAENYGCTFKKHSLFTTIIIGLVTILILSIII
                     SVSIGQVSIPFSQSYRILIYKLTGLQTGNLDQFMNGMFEEIIWQIRFPRVLLAMIAGI
                     GLTLCGVVMQASVQNPLADPYILGISSGASLGATFSIMIGFGAAGTLSELGVAFWAFI
                     GAFGAGALVMGLASIGGKMSSVKLVLAGTVINALCNAISSFIVYFAKDAEGIRSVTFW
                     TMGSLTSAQWGKLPIITTIVMLAVVLFLSQARIMNTMMMGEETAVTLGINLNFYRRLY
                     MVISVAVTGVIVATCGIIGFVGLIVPHIVRSIVGSDNKRLLPTSILFSAIFLIWADIF
                     ARTIIPNGELPIGIITSLLGAPVFMYMLVKRSYGFGGK"
     misc_feature    <349387..350259
                     /locus_tag="CLC_0361"
                     /note="iron-hydroxamate transporter permease subunit;
                     Provisional; Region: PRK10577"
                     /db_xref="CDD:236720"
     misc_feature    349441..350247
                     /locus_tag="CLC_0361"
                     /note="Transmembrane subunit (TM), of Periplasmic Binding
                     Protein (PBP)-dependent ATP-Binding Cassette (ABC)
                     transporters involved in the uptake of siderophores, heme,
                     vitamin B12, or the divalent cations Mg2+ and Zn2+.
                     PBP-dependent ABC transporters consist of...; Region:
                     TM_ABC_iron-siderophores_like; cd06550"
                     /db_xref="CDD:119348"
     misc_feature    order(349495..349497,349507..349515,349897..349902,
                     349906..349914,349918..349923,349927..349944,
                     349948..349956,350077..350079,350098..350100)
                     /locus_tag="CLC_0361"
                     /note="ABC-ATPase subunit  interface; other site"
                     /db_xref="CDD:119348"
     misc_feature    order(349510..349512,349516..349518,349531..349533,
                     349708..349710,349714..349719,349726..349731,
                     349738..349743,349750..349752,349759..349764,
                     349768..349770,349807..349812,349819..349821,
                     350047..350049,350203..350205,350212..350217,
                     350224..350226,350233..350238,350245..350247)
                     /locus_tag="CLC_0361"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:119348"
     misc_feature    order(349768..349770,349849..349851,350023..350025,
                     350035..350037,350167..350169,350194..350196)
                     /locus_tag="CLC_0361"
                     /note="putative PBP binding regions; other site"
                     /db_xref="CDD:119348"
     gene            350282..351052
                     /locus_tag="CLC_0362"
                     /db_xref="GeneID:5399457"
                     /db_xref="Pathema:CLC_0362"
     CDS             350282..351052
                     /locus_tag="CLC_0362"
                     /note="identified by match to protein family HMM PF00005"
                     /codon_start=1
                     /transl_table=11
                     /product="iron ABC transporter ATP-binding protein"
                     /protein_id="YP_001386257.1"
                     /db_xref="GI:153937142"
                     /db_xref="GeneID:5399457"
                     /db_xref="Pathema:CLC_0362"
                     /translation="MNLKVDNIFVTLSGRKIVKDISLQVDDGKFVGIIGPNGCGKSTL
                     LKSIYKVINPEKGSVFLGEKDVLKSKAKSVSKEMGVVGQFNDLSFDFSVYDMVMMGRT
                     PHKNLMEPDNKEDYEIVHNALKKVNLTTYSDRSYLTLSGGEKQRVILARAIAQEPKFL
                     ILDEPTNHLDIKYQLQIFSIVKSLKIGVLAALHDLSMAATYCDILYVVKNGEIVTYGK
                     PNEILTKELIKSVYEIDCEIYTNPITGEMAIAYKMPKY"
     misc_feature    350282..351016
                     /locus_tag="CLC_0362"
                     /note="ABC-type cobalamin/Fe3+-siderophores transport
                     systems, ATPase components [Inorganic ion transport and
                     metabolism / Coenzyme metabolism]; Region: FepC; COG1120"
                     /db_xref="CDD:224045"
     misc_feature    350291..350932
                     /locus_tag="CLC_0362"
                     /note="ATP-binding component of iron-siderophores, vitamin
                     B12 and hemin transporters and related proteins; Region:
                     ABC_Iron-Siderophores_B12_Hemin; cd03214"
                     /db_xref="CDD:213181"
     misc_feature    350384..350407
                     /locus_tag="CLC_0362"
                     /note="Walker A/P-loop; other site"
                     /db_xref="CDD:213181"
     misc_feature    order(350393..350398,350402..350410,350528..350530,
                     350768..350773,350858..350860)
                     /locus_tag="CLC_0362"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:213181"
     misc_feature    350519..350530
                     /locus_tag="CLC_0362"
                     /note="Q-loop/lid; other site"
                     /db_xref="CDD:213181"
     misc_feature    350696..350725
                     /locus_tag="CLC_0362"
                     /note="ABC transporter signature motif; other site"
                     /db_xref="CDD:213181"
     misc_feature    350756..350773
                     /locus_tag="CLC_0362"
                     /note="Walker B; other site"
                     /db_xref="CDD:213181"
     misc_feature    350780..350791
                     /locus_tag="CLC_0362"
                     /note="D-loop; other site"
                     /db_xref="CDD:213181"
     misc_feature    350846..350866
                     /locus_tag="CLC_0362"
                     /note="H-loop/switch region; other site"
                     /db_xref="CDD:213181"
     gene            351087..352415
                     /locus_tag="CLC_0363"
                     /db_xref="GeneID:5401829"
                     /db_xref="Pathema:CLC_0363"
     CDS             351087..352415
                     /locus_tag="CLC_0363"
                     /note="identified by match to protein family HMM PF01554;
                     match to protein family HMM TIGR00797"
                     /codon_start=1
                     /transl_table=11
                     /product="MATE efflux family protein"
                     /protein_id="YP_001386258.1"
                     /db_xref="GI:153934683"
                     /db_xref="GeneID:5401829"
                     /db_xref="Pathema:CLC_0363"
                     /translation="METDMTKGKPMGIIVKFFIPMFIGNLFQQIYNVVDSIVIGRFVG
                     NEAFAAVGSCFLIMSFMTSILIGLAMGASAFFSQLYGAKQYDEMKKAISTSFFFILSI
                     SILLSLITNVFLYEIIELFQMPKDTVTYSAEYLRYILTGLIFTGLYNICAYLLRSIGD
                     SKSPLYFLIVSCILNTILDLIFVLVFNMGVSGVGLATFIAQGLSALWCAFYTVKHMKF
                     LDFKRKDIVFSRKLFRTILSYSVLTAVQQSLSSFGMLMIQGLINTFGTTVMAAFAACS
                     KIDEFANRPLQDLSNAFSTYVAQNKGAGNIERIRQGFYAILKVIALISFIISIVVFIF
                     APNLISIFVKKESIDIIQVGVGYLRIVCIFYILLGCIVMFYGFFRGMGEVNISIILTV
                     VSQGIRVALAYGLARTSMGFTGICWSIVIGWLLSNALGRFMYKKVMANPI"
     misc_feature    351087..352400
                     /locus_tag="CLC_0363"
                     /note="Na+-driven multidrug efflux pump [Defense
                     mechanisms]; Region: NorM; COG0534"
                     /db_xref="CDD:223608"
     misc_feature    351126..352400
                     /locus_tag="CLC_0363"
                     /note="Subfamily of the multidrug and toxic compound
                     extrusion (MATE)-like proteins similar to Bacillus
                     subtilis yoeA; Region: MATE_yoeA_like; cd13138"
                     /db_xref="CDD:240543"
     gene            complement(352560..353531)
                     /locus_tag="CLC_0364"
                     /db_xref="GeneID:5398620"
                     /db_xref="Pathema:CLC_0364"
     CDS             complement(352560..353531)
                     /locus_tag="CLC_0364"
                     /note="identified by match to protein family HMM PF00165"
                     /codon_start=1
                     /transl_table=11
                     /product="AraC family transcriptional regulator"
                     /protein_id="YP_001386259.1"
                     /db_xref="GI:153935592"
                     /db_xref="GeneID:5398620"
                     /db_xref="Pathema:CLC_0364"
                     /translation="MKIDETMKVIKKFALQLNCKEYDYGNGHIHRLPKENGDSWFVEV
                     NPADGLLLSDAYFSLLKPVTYIYNIPNNHILICSLYSGNITVVENGKKSKRLYQGIHF
                     FVNRGKKIKIIINTDEPIWYTFALVFEVFILKYIKDFLSQASYILSKDILLKPNYFNT
                     PELLMIFEQLKYTIRSCDLPHMYYIGKIYEIFAIIIRNLENEKYLNIPRHNHLSYQNK
                     QFMWTLKEEIDKNILNPPTIEEMKNIAEMSESKLRRCFKATYGKTIYEYIRYKKMEQA
                     IRFLSHDEMSIHNISTTLGYESPSKFSAAFKKVYGITPSAFRKSFNL"
     misc_feature    complement(352566..352922)
                     /locus_tag="CLC_0364"
                     /note="AraC-type DNA-binding domain-containing proteins
                     [Transcription]; Region: AraC; COG2207"
                     /db_xref="CDD:225117"
     misc_feature    complement(352575..352703)
                     /locus_tag="CLC_0364"
                     /note="Bacterial regulatory helix-turn-helix proteins,
                     AraC family; Region: HTH_AraC; pfam00165"
                     /db_xref="CDD:215763"
     gene            353978..354916
                     /locus_tag="CLC_0365"
                     /db_xref="GeneID:5400025"
                     /db_xref="Pathema:CLC_0365"
     CDS             353978..354916
                     /locus_tag="CLC_0365"
                     /note="identified by similarity to SP:P37580; match to
                     protein family HMM PF01497"
                     /codon_start=1
                     /transl_table=11
                     /product="iron ABC transporter substrate-binding protein"
                     /protein_id="YP_001386260.1"
                     /db_xref="GI:153937304"
                     /db_xref="GeneID:5400025"
                     /db_xref="Pathema:CLC_0365"
                     /translation="MKSTKGKLIFTLCLILMFSVLVIGCSKSTSTNSGGESDKDHKTR
                     TISTAMGKVEVPANPKRIVINYFQGDLLALGVKPLATSRMEGDSALKNELKGVKIVEK
                     WEPEEIMAFKPDLIIVISEEEYKKFNKIAPTVLIPFTKISSEERLTLIAEAVGKQEEA
                     KKVINNFKNKVETSKKKLEAAGVMDKTFTLIEQDTKQITVFGNKWGRGGEILYDYLGV
                     KAPNVIKKEIINGEQYKNVSLEAFPEYSGDYIIQAVWNYGGDNLKDNNLWINLPAAKE
                     NRVIKTDWNLFFYKDLYSMDKQLDYIVNAILKTTKK"
     misc_feature    354002..354913
                     /locus_tag="CLC_0365"
                     /note="ABC-type Fe3+-hydroxamate transport system,
                     periplasmic component [Inorganic ion transport and
                     metabolism]; Region: FepB; COG0614"
                     /db_xref="CDD:223687"
     misc_feature    354128..354850
                     /locus_tag="CLC_0365"
                     /note="Helical backbone metal receptor (TroA-like domain).
                     These proteins have been shown to function in the ABC
                     transport of ferric siderophores and metal ions such as
                     Mn2+, Fe3+, Cu2+ and/or Zn2+.  Their ligand binding site
                     is formed in the interface between...; Region: TroA-like;
                     cl00262"
                     /db_xref="CDD:241735"
     misc_feature    order(354350..354355,354362..354364,354431..354433)
                     /locus_tag="CLC_0365"
                     /note="intersubunit interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238347"
     gene            354977..355093
                     /locus_tag="CLC_0366"
                     /db_xref="GeneID:5399817"
                     /db_xref="Pathema:CLC_0366"
     CDS             354977..355093
                     /locus_tag="CLC_0366"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386261.1"
                     /db_xref="GI:153934838"
                     /db_xref="GeneID:5399817"
                     /db_xref="Pathema:CLC_0366"
                     /translation="MDIYIAWKAIFNKNTFCINKKAVDKIYLSTAYGVVVLA"
     gene            complement(355255..356223)
                     /locus_tag="CLC_0367"
                     /db_xref="GeneID:5401330"
                     /db_xref="Pathema:CLC_0367"
     CDS             complement(355255..356223)
                     /locus_tag="CLC_0367"
                     /note="identified by match to protein family HMM PF00165"
                     /codon_start=1
                     /transl_table=11
                     /product="AraC family transcriptional regulator"
                     /protein_id="YP_001386262.1"
                     /db_xref="GI:153935780"
                     /db_xref="GeneID:5401330"
                     /db_xref="Pathema:CLC_0367"
                     /translation="MVKYSDSSWSALADKYNLVKRPYGKGQIYDFPPHWSNGWIAEVN
                     PAKGLFVSSAWFTPSEQIVYTINSSNPFMMLFCIDCGEIVYSQQGKKKQALFPITHLI
                     INPQKQFTFTFFKDVHYCFTSILIFDDFIKPFLKERTNAPRISVEDAKLWKTQHYNTP
                     DIMLIFEQIRWAVRNTDMPLLSFEGMTLHLLSSITRNFPDIPKRRSNRRHYVTWENEQ
                     KIYKVKNKIDEDILNLPDTIELCRIAGMSESKLRQSFKNHYGIPLYRYIRIETMKRAM
                     QLLSADHLSIRNISELCGYKNPAKFAAAFKNIHGITPSDFRKSFNL"
     misc_feature    complement(355261..355611)
                     /locus_tag="CLC_0367"
                     /note="AraC-type DNA-binding domain-containing proteins
                     [Transcription]; Region: AraC; COG2207"
                     /db_xref="CDD:225117"
     gene            356541..357470
                     /locus_tag="CLC_0368"
                     /db_xref="GeneID:5398750"
                     /db_xref="Pathema:CLC_0368"
     CDS             356541..357470
                     /locus_tag="CLC_0368"
                     /note="identified by match to protein family HMM PF01497"
                     /codon_start=1
                     /transl_table=11
                     /product="iron ABC transporter substrate-binding protein"
                     /protein_id="YP_001386263.1"
                     /db_xref="GI:153936756"
                     /db_xref="GeneID:5398750"
                     /db_xref="Pathema:CLC_0368"
                     /translation="MKKLLSLFCAIFMTTVIFAGCSSSKNEKKEEATVRTITTVKGDI
                     EVPANPKRVVANWYVGEVITLGLNLVGYNAWEQETMPFYDKLKATKKIKKWEPEEVMN
                     LKPDLIITYDEADFDKFSKVAPVLVIPESKNSIDRIKFIGEATGRTTEAKEAVSKFEK
                     KLDAVKKTFKSDKFVGKTFSIMEDWGPTGEFSGIYYETGSRGGTLVYDYLGLKYPDKL
                     KELIEKSKKGRGSISYEVAHEYFGDYILWFQQEGKESKYSKTDIWKSIPAVAAGRVVE
                     IPGKYSGLFYYSDITSLTEQLDYMSDAINSLVK"
     misc_feature    356553..357452
                     /locus_tag="CLC_0368"
                     /note="ABC-type Fe3+-hydroxamate transport system,
                     periplasmic component [Inorganic ion transport and
                     metabolism]; Region: FepB; COG0614"
                     /db_xref="CDD:223687"
     misc_feature    356664..357371
                     /locus_tag="CLC_0368"
                     /note="Helical backbone metal receptor (TroA-like domain).
                     These proteins have been shown to function in the ABC
                     transport of ferric siderophores and metal ions such as
                     Mn2+, Fe3+, Cu2+ and/or Zn2+.  Their ligand binding site
                     is formed in the interface between...; Region: TroA-like;
                     cl00262"
                     /db_xref="CDD:241735"
     misc_feature    order(356889..356894,356901..356903,356967..356969)
                     /locus_tag="CLC_0368"
                     /note="intersubunit interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238347"
     gene            357497..358525
                     /locus_tag="CLC_0369"
                     /db_xref="GeneID:5400287"
                     /db_xref="Pathema:CLC_0369"
     CDS             357497..358525
                     /locus_tag="CLC_0369"
                     /note="identified by match to protein family HMM PF01032"
                     /codon_start=1
                     /transl_table=11
                     /product="iron ABC transporter permease"
                     /protein_id="YP_001386264.1"
                     /db_xref="GI:153935164"
                     /db_xref="GeneID:5400287"
                     /db_xref="Pathema:CLC_0369"
                     /translation="MQKTYNKKRQLGALNFTIYMIVGVVLLVIMSAASISFGAADMNL
                     TTAWGAIFNFDSSLTEHQIIQTLRLPRIAANIIVGSSLAICGAIMQGTTRNPLADSGL
                     MGISSGATFAMAFCMAFLPGGSYGQMMLFACIGAAITTGMTYFIASIGRGGMKPQRLV
                     LAGISISMLFGAFSQYLSIKYKLGHALAYWTAGGTAGAKWSELAIVFPFFIVGIIVAF
                     VISPSITVLNLGDDAAIGLGINTKKVKGVSTVVVLILTGISVIVVGPVGFVGLIVPHI
                     VRYLIGVDYRYIIPASGLYGALITVTADLVGRLINKPYETPIGIIFALIGVPYFLYLT
                     RIQRREFE"
     misc_feature    357554..358495
                     /locus_tag="CLC_0369"
                     /note="ABC-type enterobactin transport system, permease
                     component [Inorganic ion transport and metabolism];
                     Region: FepG; COG4779"
                     /db_xref="CDD:227119"
     misc_feature    357722..358495
                     /locus_tag="CLC_0369"
                     /note="Transmembrane subunit (TM), of Periplasmic Binding
                     Protein (PBP)-dependent ATP-Binding Cassette (ABC)
                     transporters involved in the uptake of siderophores, heme,
                     vitamin B12, or the divalent cations Mg2+ and Zn2+.
                     PBP-dependent ABC transporters consist of...; Region:
                     TM_ABC_iron-siderophores_like; cd06550"
                     /db_xref="CDD:119348"
     misc_feature    order(357764..357766,357776..357784,358148..358153,
                     358157..358165,358169..358174,358178..358195,
                     358199..358207,358328..358330,358349..358351)
                     /locus_tag="CLC_0369"
                     /note="ABC-ATPase subunit  interface; other site"
                     /db_xref="CDD:119348"
     misc_feature    order(357779..357781,357785..357787,357800..357802,
                     357968..357970,357974..357979,357986..357991,
                     357998..358003,358010..358012,358019..358024,
                     358028..358030,358058..358063,358070..358072,
                     358298..358300,358454..358456,358463..358468,
                     358475..358477,358484..358489)
                     /locus_tag="CLC_0369"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:119348"
     misc_feature    order(358028..358030,358100..358102,358274..358276,
                     358286..358288,358418..358420,358445..358447)
                     /locus_tag="CLC_0369"
                     /note="putative PBP binding regions; other site"
                     /db_xref="CDD:119348"
     gene            358522..359535
                     /locus_tag="CLC_0370"
                     /db_xref="GeneID:5400945"
                     /db_xref="Pathema:CLC_0370"
     CDS             358522..359535
                     /locus_tag="CLC_0370"
                     /note="identified by match to protein family HMM PF01032"
                     /codon_start=1
                     /transl_table=11
                     /product="iron ABC transporter permease"
                     /protein_id="YP_001386265.1"
                     /db_xref="GI:153934542"
                     /db_xref="GeneID:5400945"
                     /db_xref="Pathema:CLC_0370"
                     /translation="MKKKGYSVSRGLTIILLLTIILLVVAVISVNSGKMNLSPSEVFN
                     VLIGRGTDKQNLIVYNFRLPRIVLTMLVGIGMGTAGCVMQSLLRNDMASPGTLGISSG
                     SGLFVLLFIVIFKVDSVSSAIALPLLAFVGGMTAAVLIFLLSYRRGKSISPTGLILTG
                     VAVGSGYSAVTMMLTLKLDEKQMDFVQRWSAGSLWGDNWTYISILAPWVLILFLYVFY
                     KSRILNTLNLGNQTAKGLGVAVKREFIGLTVAAVALSSGSVALGGNFFFVGMISPHMA
                     RKFVGSNHKLLIPTASLVGSIIILLSDTITRTISFGSDIPTGIVITVLSTPYFLYLLV
                     KSN"
     misc_feature    <358654..359532
                     /locus_tag="CLC_0370"
                     /note="iron-hydroxamate transporter permease subunit;
                     Provisional; Region: PRK10577"
                     /db_xref="CDD:236720"
     misc_feature    358717..359520
                     /locus_tag="CLC_0370"
                     /note="Transmembrane subunit (TM), of Periplasmic Binding
                     Protein (PBP)-dependent ATP-Binding Cassette (ABC)
                     transporters involved in the uptake of siderophores, heme,
                     vitamin B12, or the divalent cations Mg2+ and Zn2+.
                     PBP-dependent ABC transporters consist of...; Region:
                     TM_ABC_iron-siderophores_like; cd06550"
                     /db_xref="CDD:119348"
     misc_feature    order(358771..358773,358783..358791,359170..359175,
                     359179..359187,359191..359196,359200..359217,
                     359221..359229,359350..359352,359371..359373)
                     /locus_tag="CLC_0370"
                     /note="ABC-ATPase subunit  interface; other site"
                     /db_xref="CDD:119348"
     misc_feature    order(358786..358788,358792..358794,358807..358809,
                     358984..358986,358990..358995,359002..359007,
                     359014..359019,359026..359028,359035..359040,
                     359044..359046,359077..359082,359092..359094,
                     359320..359322,359476..359478,359485..359490,
                     359497..359499,359506..359511,359518..359520)
                     /locus_tag="CLC_0370"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:119348"
     misc_feature    order(359044..359046,359122..359124,359296..359298,
                     359308..359310,359440..359442,359467..359469)
                     /locus_tag="CLC_0370"
                     /note="putative PBP binding regions; other site"
                     /db_xref="CDD:119348"
     gene            359546..360376
                     /locus_tag="CLC_0371"
                     /db_xref="GeneID:5399610"
                     /db_xref="Pathema:CLC_0371"
     CDS             359546..360376
                     /locus_tag="CLC_0371"
                     /note="identified by match to protein family HMM PF00005"
                     /codon_start=1
                     /transl_table=11
                     /product="iron ABC transporter ATP-binding protein"
                     /protein_id="YP_001386266.1"
                     /db_xref="GI:153935496"
                     /db_xref="GeneID:5399610"
                     /db_xref="Pathema:CLC_0371"
                     /translation="MKSIETKNLDIAYEDTLIVKELNMQIPKGKITSIIGANGCGKST
                     ILKSVGRILKPKKGVVHLSGQDISKLSTKEIAKKMAILPQNPTAPSGLTVSELVAYGR
                     FPHQKGFGNLTEEDKRIVKWALAATKLSEFERREADTLSGGQRQRVWIAMALAQQTDL
                     ILLDEPTTYLDLAHQLEVLKLLYELNRNQKCTIVMVLHDLNLAARFSDYIIAIQKGDI
                     IKYGPPEEVMTPEVLRKTFNINADIVIEPKSNRPVCITYDIIDENECAQLKEREAVGI
                     "
     misc_feature    359549..360322
                     /locus_tag="CLC_0371"
                     /note="ABC-type cobalamin/Fe3+-siderophores transport
                     systems, ATPase components [Inorganic ion transport and
                     metabolism / Coenzyme metabolism]; Region: FepC; COG1120"
                     /db_xref="CDD:224045"
     misc_feature    359558..360211
                     /locus_tag="CLC_0371"
                     /note="ATP-binding component of iron-siderophores, vitamin
                     B12 and hemin transporters and related proteins; Region:
                     ABC_Iron-Siderophores_B12_Hemin; cd03214"
                     /db_xref="CDD:213181"
     misc_feature    359651..359674
                     /locus_tag="CLC_0371"
                     /note="Walker A/P-loop; other site"
                     /db_xref="CDD:213181"
     misc_feature    order(359660..359665,359669..359677,359795..359797,
                     360035..360040,360137..360139)
                     /locus_tag="CLC_0371"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:213181"
     misc_feature    359786..359797
                     /locus_tag="CLC_0371"
                     /note="Q-loop/lid; other site"
                     /db_xref="CDD:213181"
     misc_feature    359963..359992
                     /locus_tag="CLC_0371"
                     /note="ABC transporter signature motif; other site"
                     /db_xref="CDD:213181"
     misc_feature    360023..360040
                     /locus_tag="CLC_0371"
                     /note="Walker B; other site"
                     /db_xref="CDD:213181"
     misc_feature    360047..360058
                     /locus_tag="CLC_0371"
                     /note="D-loop; other site"
                     /db_xref="CDD:213181"
     misc_feature    360125..360145
                     /locus_tag="CLC_0371"
                     /note="H-loop/switch region; other site"
                     /db_xref="CDD:213181"
     gene            360373..362097
                     /locus_tag="CLC_0372"
                     /db_xref="GeneID:5398258"
                     /db_xref="Pathema:CLC_0372"
     CDS             360373..362097
                     /locus_tag="CLC_0372"
                     /note="identified by match to protein family HMM PF00005;
                     match to protein family HMM PF00664"
                     /codon_start=1
                     /transl_table=11
                     /product="ABC transporter ATP-binding protein/permease"
                     /protein_id="YP_001386267.1"
                     /db_xref="GI:153935555"
                     /db_xref="GeneID:5398258"
                     /db_xref="Pathema:CLC_0372"
                     /translation="MRTTLRIFIGARRYWIHLILALIAVIISTIAGFYNPWALRELTS
                     IATEGSANFGGQSLRIGLMLLVATILQSAGSAISGYLNHHAALHYVADMRTELYSKLQ
                     HMGLRYFNKSRTGDLTSRVINDVMEVEILLAHIIPDFVVNILTFIGVGILLFSINVKL
                     AFISLVTIPFIIMITLWQSKHLSPIWKQNSMIRGELSGTVQDNFSGIKEIQIFNQQER
                     EEKRIKNLSMKHSKAYLKASFFFETTFPLLAFFTALGSVIVIIFGGFMVSRGEINIGD
                     IVGFSMYLSMFYGPIKSFSRLMEMAGNAVAGCKRVFEVMDEVSDVQEKVNAKKLPRVK
                     GEVEFKGISFSYNDEIKVLKNINLKVNPGETVAFVGATGVGKTTIASLLNRFYDPQSG
                     SILMDGIDIKDVTLKSLRDNISMVLQDTFLFNGTIYENIVYGWKEATRNQVLAASKAA
                     NAHNFIENLEDGYDTIIGERGVRLSGGQKQRISIARAILRNSPILILDEATSALDTRT
                     EKEIQAALDEISKDRTTIVIAHRLSTIYNADKIVVLEGAGIKETGTHDELIRSGGTYA
                     MLYKSQVS"
     misc_feature    360466..361245
                     /locus_tag="CLC_0372"
                     /note="ABC transporter transmembrane region; Region:
                     ABC_membrane; pfam00664"
                     /db_xref="CDD:216049"
     misc_feature    360472..362088
                     /locus_tag="CLC_0372"
                     /note="ABC-type multidrug transport system, ATPase and
                     permease components [Defense mechanisms]; Region: MdlB;
                     COG1132"
                     /db_xref="CDD:224055"
     misc_feature    361381..362079
                     /locus_tag="CLC_0372"
                     /note="ATP-binding cassette domain of the bacterial lipid
                     flippase and related proteins, subfamily C; Region:
                     ABCC_MsbA; cd03251"
                     /db_xref="CDD:213218"
     misc_feature    361480..361503
                     /locus_tag="CLC_0372"
                     /note="Walker A/P-loop; other site"
                     /db_xref="CDD:213218"
     misc_feature    order(361489..361494,361498..361506,361624..361626,
                     361864..361869,361960..361962)
                     /locus_tag="CLC_0372"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:213218"
     misc_feature    361615..361626
                     /locus_tag="CLC_0372"
                     /note="Q-loop/lid; other site"
                     /db_xref="CDD:213218"
     misc_feature    361792..361821
                     /locus_tag="CLC_0372"
                     /note="ABC transporter signature motif; other site"
                     /db_xref="CDD:213218"
     misc_feature    361852..361869
                     /locus_tag="CLC_0372"
                     /note="Walker B; other site"
                     /db_xref="CDD:213218"
     misc_feature    361876..361887
                     /locus_tag="CLC_0372"
                     /note="D-loop; other site"
                     /db_xref="CDD:213218"
     misc_feature    361948..361968
                     /locus_tag="CLC_0372"
                     /note="H-loop/switch region; other site"
                     /db_xref="CDD:213218"
     gene            complement(362151..362531)
                     /locus_tag="CLC_0373"
                     /db_xref="GeneID:5399750"
                     /db_xref="Pathema:CLC_0373"
     CDS             complement(362151..362531)
                     /locus_tag="CLC_0373"
                     /note="identified by match to protein family HMM PF01325"
                     /codon_start=1
                     /transl_table=11
                     /product="iron-dependent repressor"
                     /protein_id="YP_001386268.1"
                     /db_xref="GI:153935919"
                     /db_xref="GeneID:5399750"
                     /db_xref="Pathema:CLC_0373"
                     /translation="MEKLTFVMENYLEAIYELSEESNGVKMTRIAEKLGVTKASTNSA
                     MVTLAEKGLITNEKYKKIFLTPLGLKIARFTYKKHHIIKDFLIKTLNIDSSIADEDAC
                     AIEHVISSDSVYAMQKFLSEHENK"
     misc_feature    complement(362352..362513)
                     /locus_tag="CLC_0373"
                     /note="Iron dependent repressor, N-terminal DNA binding
                     domain; Region: Fe_dep_repress; pfam01325"
                     /db_xref="CDD:110335"
     misc_feature    complement(362169..362450)
                     /locus_tag="CLC_0373"
                     /note="Helix-turn-helix diphteria tox regulatory element;
                     Region: HTH_DTXR; smart00529"
                     /db_xref="CDD:197774"
     misc_feature    complement(<362172..362339)
                     /locus_tag="CLC_0373"
                     /note="Iron dependent repressor, metal binding and
                     dimerisation domain; Region: Fe_dep_repr_C; pfam02742"
                     /db_xref="CDD:202369"
     gene            363230..364531
                     /locus_tag="CLC_0374"
                     /db_xref="GeneID:5399418"
                     /db_xref="Pathema:CLC_0374"
     CDS             363230..364531
                     /locus_tag="CLC_0374"
                     /note="identified by match to protein family HMM PF00860;
                     match to protein family HMM TIGR00801; match to protein
                     family HMM TIGR03173"
                     /codon_start=1
                     /transl_table=11
                     /product="xanthine/uracil permease"
                     /protein_id="YP_001386269.1"
                     /db_xref="GI:153934932"
                     /db_xref="GeneID:5399418"
                     /db_xref="Pathema:CLC_0374"
                     /translation="MKKNEMDIQLMYGVNDKPQILMQILLGLQHIFAAFGGIIVVPIV
                     ISAALGFDAQTSTALISSAILAAGVATFIQSRGIGPIGARVACIMGTDFTFVAPAIAV
                     GGKFGLSGIFGATILGAGIVIILSFFVKPLMKLFPPIVTGTVVSLIGLTLLPVSIDWA
                     AGGAGSANYGSLKNISIALFIMIVTLLLNHYGKGLVSSASILIGMIVGYIICIPLEMV
                     DFSSVSQASWVSLPKIFGYGITFNLQVLLPFIPAYFVTIIGTVGCLKAITEVSGIKAD
                     EKPITAGVLSDGVGSMLAGVFGALPNTSFSQNIGLIPLTKVASRYVTMMAGILLVILG
                     LFPKFAALINIMPQPVLGGVGIVMFGTVAAAGIQTLSSVKLNNRNMLIIATSIGLGLG
                     VTFRPEFIAQLPESLKMIFSSGISTGTIVALLLNVILKEKE"
     misc_feature    363308..364519
                     /locus_tag="CLC_0374"
                     /note="xanthine permease; Region: pbuX; TIGR03173"
                     /db_xref="CDD:234136"
     gene            364554..365126
                     /gene="xpt-1"
                     /locus_tag="CLC_0375"
                     /db_xref="GeneID:5399106"
                     /db_xref="Pathema:CLC_0375"
     CDS             364554..365126
                     /gene="xpt-1"
                     /locus_tag="CLC_0375"
                     /EC_number="2.4.2.22"
                     /note="Catalyzes the transfer of the phosphoribosyl moiety
                     from 5-phospho--D-ribosyl-1-pyrophosphate (PRib-PP) to the
                     6-oxo-guanine and -xanthine"
                     /codon_start=1
                     /transl_table=11
                     /product="xanthine phosphoribosyltransferase"
                     /protein_id="YP_001386270.1"
                     /db_xref="GI:153937838"
                     /db_xref="GeneID:5399106"
                     /db_xref="Pathema:CLC_0375"
                     /translation="MEKLQNRILQEGHALSETVLKVDSFLNHQVDPDLMYEIGTYFKN
                     YFKEHKITKVFTIESSGIAPAVMTAMQMNLPMVILKKQASKILNGDVYQTTVHSFTKG
                     LDYELTLSKKYIAKEDNILIIDDFLANGEAALGAARLVKEAGAKVAGMGIVIEKSFQP
                     GRKMLEDKGYDVYSLARIAKLQKGLIEFVK"
     misc_feature    364701..365081
                     /gene="xpt-1"
                     /locus_tag="CLC_0375"
                     /note="Phosphoribosyl transferase (PRT)-type I domain;
                     Region: PRTases_typeI; cd06223"
                     /db_xref="CDD:206754"
     misc_feature    order(364725..364727,364731..364733,364923..364931,
                     364935..364949,365019..365021)
                     /gene="xpt-1"
                     /locus_tag="CLC_0375"
                     /note="active site"
                     /db_xref="CDD:206754"
     gene            365577..366269
                     /locus_tag="CLC_0376"
                     /db_xref="GeneID:5400756"
                     /db_xref="Pathema:CLC_0376"
     CDS             365577..366269
                     /locus_tag="CLC_0376"
                     /note="identified by match to protein family HMM PF00072;
                     match to protein family HMM PF00486"
                     /codon_start=1
                     /transl_table=11
                     /product="DNA-binding response regulator"
                     /protein_id="YP_001386271.1"
                     /db_xref="GI:153936909"
                     /db_xref="GeneID:5400756"
                     /db_xref="Pathema:CLC_0376"
                     /translation="MNYKIYIIEDDLSISLLLKDYITKYGFDVKIAENFENIIEDFNE
                     FNPDVVLLDVNLPKYDGFYWCRRIRQKSKIPIIFISARDSGMDQVMALENGADDYIIK
                     PFYCDVIMAKIKSHIRRAFGEYAPKVDEKIVELQGLKFYKERSEIEFKDERVIITKKE
                     GILLEYLMKKYPKVVNRDFLLEKIWDDIEFVEENTLNVNVSRIRKRLHKLGIEDGIET
                     VRGVGYRLNKTW"
     misc_feature    365643..365927
                     /locus_tag="CLC_0376"
                     /note="Signal receiver domain; originally thought to be
                     unique to bacteria (CheY, OmpR, NtrC, and PhoB), now
                     recently identified in eukaroytes ETR1 Arabidopsis
                     thaliana; this domain receives the signal from the sensor
                     partner in a two-component systems; Region: REC; cd00156"
                     /db_xref="CDD:238088"
     misc_feature    365715..366254
                     /locus_tag="CLC_0376"
                     /note="Response regulators consisting of a CheY-like
                     receiver domain and a winged-helix DNA-binding domain
                     [Signal transduction mechanisms / Transcription]; Region:
                     OmpR; COG0745"
                     /db_xref="CDD:223816"
     misc_feature    order(365733..365735,365757..365759,365814..365816,
                     365871..365873,365880..365885)
                     /locus_tag="CLC_0376"
                     /note="active site"
                     /db_xref="CDD:238088"
     misc_feature    365733..365735
                     /locus_tag="CLC_0376"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:238088"
     misc_feature    order(365742..365747,365751..365759)
                     /locus_tag="CLC_0376"
                     /note="intermolecular recognition site; other site"
                     /db_xref="CDD:238088"
     misc_feature    365880..365888
                     /locus_tag="CLC_0376"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238088"
     misc_feature    365973..366254
                     /locus_tag="CLC_0376"
                     /note="Effector domain of response regulator. Bacteria and
                     certain eukaryotes like protozoa and higher plants use
                     two-component signal transduction systems to detect and
                     respond to changes in the environment. The system consists
                     of a sensor histidine kinase and...; Region: trans_reg_C;
                     cd00383"
                     /db_xref="CDD:238225"
     misc_feature    order(366045..366047,366102..366107,366159..366161,
                     366168..366170,366192..366197,366228..366230,
                     366243..366245)
                     /locus_tag="CLC_0376"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238225"
     gene            366282..367262
                     /locus_tag="CLC_0377"
                     /db_xref="GeneID:5399223"
                     /db_xref="Pathema:CLC_0377"
     CDS             366282..367262
                     /locus_tag="CLC_0377"
                     /EC_number="2.7.3.-"
                     /note="identified by match to protein family HMM PF00512;
                     match to protein family HMM PF02518"
                     /codon_start=1
                     /transl_table=11
                     /product="sensor histidine kinase"
                     /protein_id="YP_001386272.1"
                     /db_xref="GI:153934663"
                     /db_xref="GeneID:5399223"
                     /db_xref="Pathema:CLC_0377"
                     /translation="MKLFIKDNKGYIVVYFISIFITLGYLALSGFVQIGEYLYIVLFN
                     TFILGCFLFFRYYKNKEVYRFLDEGLNNLDESFLDLGNSVLGESISNILKKEHNLYEA
                     EIIKHNKVYNDHLTFINQWVHQMKTPLSVIQLQMQEYEGEEPFDSMKVEISKLNRGLN
                     MAMYFARLDSFQKDFIVEKFSLYNLVMSKVNEEKQIFIKNRILPKVEIDYSIEVYSDV
                     KWMKFVLEQLIVNGVKYSKDKGKELIIRAYDEENAVKLSVIDKGVGIPKKDIKRVFDP
                     FFTGENGRNFGESTGMGLYIVKRICDSLEHNVFIESKVSEGTTVSIIFEK"
     misc_feature    366312..367253
                     /locus_tag="CLC_0377"
                     /note="Signal transduction histidine kinase [Signal
                     transduction mechanisms]; Region: BaeS; COG0642"
                     /db_xref="CDD:223715"
     misc_feature    366630..366791
                     /locus_tag="CLC_0377"
                     /note="Histidine Kinase A (dimerization/phosphoacceptor)
                     domain; Histidine Kinase A dimers are formed through
                     parallel association of 2 domains creating 4-helix
                     bundles; usually these domains contain a conserved His
                     residue and are activated via...; Region: HisKA; cl00080"
                     /db_xref="CDD:241595"
     misc_feature    366951..367253
                     /locus_tag="CLC_0377"
                     /note="Histidine kinase-like ATPases; This family includes
                     several ATP-binding proteins for example: histidine
                     kinase, DNA gyrase B, topoisomerases, heat shock protein
                     HSP90, phytochrome-like ATPases and DNA mismatch repair
                     proteins; Region: HATPase_c; cd00075"
                     /db_xref="CDD:238030"
     misc_feature    order(366960..366962,366972..366974,366981..366983,
                     367053..367055,367059..367061,367065..367067,
                     367071..367076,367152..367163,367209..367211,
                     367215..367217,367230..367235,367239..367241)
                     /locus_tag="CLC_0377"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    366972..366974
                     /locus_tag="CLC_0377"
                     /note="Mg2+ binding site [ion binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    order(367065..367067,367071..367073,367152..367154,
                     367158..367160)
                     /locus_tag="CLC_0377"
                     /note="G-X-G motif; other site"
                     /db_xref="CDD:238030"
     gene            367438..368295
                     /locus_tag="CLC_0378"
                     /db_xref="GeneID:5399082"
                     /db_xref="Pathema:CLC_0378"
     CDS             367438..368295
                     /locus_tag="CLC_0378"
                     /note="BacA; phosphatase activity in Escherichia coli not
                     kinase; involved in bacitracin resistance as bacitracin
                     supposedly sequesters undecaprenyl disphosphate which
                     reduces the pool of lipid carrier available to the cell"
                     /codon_start=1
                     /transl_table=11
                     /product="undecaprenyl pyrophosphate phosphatase"
                     /protein_id="YP_001386273.1"
                     /db_xref="GI:153937124"
                     /db_xref="GeneID:5399082"
                     /db_xref="Pathema:CLC_0378"
                     /translation="MGIDIMFILKAIIIAVVEGLTEFIPVSSTGHMILVGSAINFNGD
                     FAKMFEVVIQLGAILAVVVRYWEKIKESIVEFFKFIFTKGKEGKTGFKFGVNVIVGSI
                     PIGITGLLFYHKIKSLFRPEAVIIGFIVGGILLLIIENMFRKKEHAVQDIDSITFAQA
                     LKVGVLQILSVWPGMSRSASTIMGGWIAGISTPIAAEFSFFLAIPAMIGTSLKDLFEF
                     DYSIMTPTLWSALILGFVVAFIVSIIVMNKFVSYLKKKPMKVFAIYRVLAGLLLAALV
                     FTKIIVLTV"
     misc_feature    367447..368235
                     /locus_tag="CLC_0378"
                     /note="undecaprenyl pyrophosphate phosphatase; Reviewed;
                     Region: PRK00281"
                     /db_xref="CDD:234712"
     gene            368310..369056
                     /locus_tag="CLC_0379"
                     /db_xref="GeneID:5400233"
                     /db_xref="Pathema:CLC_0379"
     CDS             368310..369056
                     /locus_tag="CLC_0379"
                     /note="identified by match to protein family HMM PF00005"
                     /codon_start=1
                     /transl_table=11
                     /product="peptide ABC transporter ATP-binding protein"
                     /protein_id="YP_001386274.1"
                     /db_xref="GI:153937494"
                     /db_xref="GeneID:5400233"
                     /db_xref="Pathema:CLC_0379"
                     /translation="MEILKVSNLKKVYGKKIIFTALNNISFNIDEGEFVGIMGPSGSG
                     KTTLLNMISTVDKPTSGQITIKDKNPLTLKGEDLALFRRRELGFVFQDFNLLDTLTIG
                     ENIVLPLTLDGISIKEQDEKLNIVSKILGIENLLEKRTFEVSGGQSQRTAIARALIHD
                     PSLLLADEPTGNLDSKASKTVMELFEKINKEEKVTTMMVTHDPLAASYCNRILFIKDG
                     VIYNEIYKGESRQQFYQEIIDLLALLGGAN"
     misc_feature    368316..368981
                     /locus_tag="CLC_0379"
                     /note="ABC-type antimicrobial peptide transport system,
                     ATPase component [Defense mechanisms]; Region: SalX;
                     COG1136"
                     /db_xref="CDD:224059"
     misc_feature    368319..368969
                     /locus_tag="CLC_0379"
                     /note="ATP-binding cassette domain of the transporters
                     involved in export of lipoprotein and macrolide, and cell
                     division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255"
                     /db_xref="CDD:213222"
     misc_feature    368424..368447
                     /locus_tag="CLC_0379"
                     /note="Walker A/P-loop; other site"
                     /db_xref="CDD:213222"
     misc_feature    order(368433..368438,368442..368450,368580..368582,
                     368808..368813,368910..368912)
                     /locus_tag="CLC_0379"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:213222"
     misc_feature    368571..368582
                     /locus_tag="CLC_0379"
                     /note="Q-loop/lid; other site"
                     /db_xref="CDD:213222"
     misc_feature    368736..368765
                     /locus_tag="CLC_0379"
                     /note="ABC transporter signature motif; other site"
                     /db_xref="CDD:213222"
     misc_feature    368796..368813
                     /locus_tag="CLC_0379"
                     /note="Walker B; other site"
                     /db_xref="CDD:213222"
     misc_feature    368820..368831
                     /locus_tag="CLC_0379"
                     /note="D-loop; other site"
                     /db_xref="CDD:213222"
     misc_feature    368898..368918
                     /locus_tag="CLC_0379"
                     /note="H-loop/switch region; other site"
                     /db_xref="CDD:213222"
     gene            369056..370918
                     /locus_tag="CLC_0380"
                     /db_xref="GeneID:5399009"
                     /db_xref="Pathema:CLC_0380"
     CDS             369056..370918
                     /locus_tag="CLC_0380"
                     /note="identified by match to protein family HMM PF02687"
                     /codon_start=1
                     /transl_table=11
                     /product="peptide ABC transporter permease"
                     /protein_id="YP_001386275.1"
                     /db_xref="GI:153935627"
                     /db_xref="GeneID:5399009"
                     /db_xref="Pathema:CLC_0380"
                     /translation="MNFREFSTKNVVRNIRAYFAYLLSSTISAALLFSFTMLVLHPNL
                     DVTTFPIYLQKAFNITTIIAYLFLCLFIFYSVSVFIKSRFKEFGILYILGSSDKQIKK
                     MIAIENVLISSLSGIFGVILGLVFSKIFLILSGRLLGYNALRFYLPVKAIIITFLAFV
                     LMGILISIFTTYMIKEDEVLNLLKGTQKPKSEPKTSNIIAILCVVLLLGGYYFSITST
                     MNNIAYRIIPVTVVVIIGTYLLFSQLSVFVIKILKKNREFYMNKTKVLWISTLLYRIK
                     DNTRMFFLITITSAMAFTSIGAVSAFWINKEAEVDKNFPQAFFYASYKKDYNELDFIE
                     GSLKKEGYNYTKVQGHIKSLVSKKNTIPINIINESTYNSIAESLGQEKIHIKSNEAIA
                     GTPLMGNKRDNILVNNMDIKVITTLEERIIPALYDYVYIVKDDVYDKISGSTSSFCAF
                     NVESYKDTLNICKNYEAKFGESNNKKDHIILMKANILESHKIGYGVIMFLTIFIGIIF
                     FVTTGSFLYNKYYMDVQQDRMKYEQLNKIGITFKEIKKVSTIEIGVLFLFPYIVSVIH
                     SLFALSALKNAFEMDVNLVAFFVMGSFFIIQIIYFFIIRGNYLLDIKKSLANRI"
     misc_feature    <369224..369580
                     /locus_tag="CLC_0380"
                     /note="ABC-type antimicrobial peptide transport system,
                     permease component [Defense mechanisms]; Region: SalY;
                     COG0577"
                     /db_xref="CDD:223650"
     misc_feature    369227..369580
                     /locus_tag="CLC_0380"
                     /note="FtsX-like permease family; Region: FtsX; pfam02687"
                     /db_xref="CDD:217187"
     gene            370942..371088
                     /locus_tag="CLC_0381"
                     /db_xref="GeneID:5398742"
                     /db_xref="Pathema:CLC_0381"
     CDS             370942..371088
                     /locus_tag="CLC_0381"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386276.1"
                     /db_xref="GI:153935907"
                     /db_xref="GeneID:5398742"
                     /db_xref="Pathema:CLC_0381"
                     /translation="MGNKEILYSLDENLRVQYNMRAFKDYIKLNEERQIVMDSIKKDG
                     KVYS"
     gene            371402..371758
                     /locus_tag="CLC_0382"
                     /db_xref="GeneID:5398451"
                     /db_xref="Pathema:CLC_0382"
     CDS             371402..371758
                     /locus_tag="CLC_0382"
                     /note="identified by match to protein family HMM PF03788"
                     /codon_start=1
                     /transl_table=11
                     /product="LrgA family protein"
                     /protein_id="YP_001386277.1"
                     /db_xref="GI:153934501"
                     /db_xref="GeneID:5398451"
                     /db_xref="Pathema:CLC_0382"
                     /translation="MRLLRQLGIILLICLLGEAIHDFFKLPIPGNVIGMILLFLCLSS
                     GIIKLTKINYISKFLLDHLAFFFVPAGVGILSCMPMLKGKWLAFLGVCLITSIIIIVV
                     TGWTIQLYIKLTSKEV"
     misc_feature    371453..371725
                     /locus_tag="CLC_0382"
                     /note="LrgA family; Region: LrgA; pfam03788"
                     /db_xref="CDD:202768"
     gene            371761..372456
                     /locus_tag="CLC_0383"
                     /db_xref="GeneID:5399349"
                     /db_xref="Pathema:CLC_0383"
     CDS             371761..372456
                     /locus_tag="CLC_0383"
                     /note="identified by match to protein family HMM PF04172"
                     /codon_start=1
                     /transl_table=11
                     /product="lrgB-like family protein"
                     /protein_id="YP_001386278.1"
                     /db_xref="GI:153937448"
                     /db_xref="GeneID:5399349"
                     /db_xref="Pathema:CLC_0383"
                     /translation="MIQDILNSPVFGILLSIIGFEIGLYIYRKTKIALFNPLLICIAL
                     IVCILISFNIKLDNFNKGGNLISFFLGPATVALAVPLYKKINVIKKYAIPILLGVTVG
                     CITAMISIFYISKAFGLTSELSYSLMPKSITTPIGIEVSKVLGGIPAITVSAIIITGI
                     MGAVIAPIVCKIFKIKNNIAIGISIGTSSHAIGTTKAIEMGETEGAMSSLAIGIAGLI
                     TSFLAPIIIKFLH"
     misc_feature    371806..372450
                     /locus_tag="CLC_0383"
                     /note="LrgB-like family; Region: LrgB; pfam04172"
                     /db_xref="CDD:146683"
     gene            372752..373402
                     /locus_tag="CLC_0384"
                     /db_xref="GeneID:5401811"
                     /db_xref="Pathema:CLC_0384"
     CDS             372752..373402
                     /locus_tag="CLC_0384"
                     /codon_start=1
                     /transl_table=11
                     /product="lipoprotein"
                     /protein_id="YP_001386279.1"
                     /db_xref="GI:153936320"
                     /db_xref="GeneID:5401811"
                     /db_xref="Pathema:CLC_0384"
                     /translation="MKKAKKSLILSLVLLFIPMMVIGCSSKPKVSADETAKILFDFYI
                     KGDQESLSKIKISKDQIEEISKMQKDKTISTIKTNLATAGLKVNDEQIKQIYAARVSA
                     LKKLSAKAEVVSQDDKSAQVKLKATHIDEVALDEKAATDAVEEVKKMNLTDRQEALNK
                     ATDIYIKNLIKSYENVKPSSDMKEQTFKFIIKEKTWIAEDMKNFGEGIVKLTSGIK"
     gene            373786..374685
                     /locus_tag="CLC_0385"
                     /db_xref="GeneID:5401407"
                     /db_xref="Pathema:CLC_0385"
     CDS             373786..374685
                     /locus_tag="CLC_0385"
                     /note="identified by match to protein family HMM PF04055"
                     /codon_start=1
                     /transl_table=11
                     /product="radical SAM domain-containing protein"
                     /protein_id="YP_001386280.1"
                     /db_xref="GI:153937483"
                     /db_xref="GeneID:5401407"
                     /db_xref="Pathema:CLC_0385"
                     /translation="MNLEYITAKTLISNYSENNWWFGINYNMNIYKGCCHGCIYCDSR
                     SECYGIDNFDKVRAKKNAIQIIKNELRKKRKKGVIGTGAMSDPYNPFERELMLTRMAL
                     EEINTLNFGAAIATKSNLIVRDIDILKKIKTYSPTLVKITITTYDDELCKKVEPNVCV
                     TSKRFQAIKELSYNGIFTGILLMPILPFINDNGENIVKIVKKAHECGAKFIFAYGMGL
                     TLRGNQREYFYRKLIREFPKENMVVKYKNAFGNKYECASLNHKKLWSIFKNECEKLGI
                     LYKMEDIILAYKDNYGNNQLSWF"
     misc_feature    373867..374499
                     /locus_tag="CLC_0385"
                     /note="Radical SAM superfamily. Enzymes of this family
                     generate radicals by combining a 4Fe-4S cluster and
                     S-adenosylmethionine (SAM) in close proximity. They are
                     characterized by a conserved CxxxCxxC motif, which
                     coordinates the conserved iron-sulfur cluster; Region:
                     Radical_SAM; cd01335"
                     /db_xref="CDD:100105"
     misc_feature    373867..374394
                     /locus_tag="CLC_0385"
                     /note="Radical SAM superfamily; Region: Radical_SAM;
                     pfam04055"
                     /db_xref="CDD:217866"
     misc_feature    order(373885..373887,373891..373893,373897..373899,
                     373903..373911,374026..374028,374038..374043,
                     374134..374142,374209..374211,374332..374334,
                     374428..374433)
                     /locus_tag="CLC_0385"
                     /note="FeS/SAM binding site; other site"
                     /db_xref="CDD:100105"
     gene            374820..376328
                     /locus_tag="CLC_0386"
                     /db_xref="GeneID:5400840"
                     /db_xref="Pathema:CLC_0386"
     CDS             374820..376328
                     /locus_tag="CLC_0386"
                     /note="identified by match to protein family HMM PF08903"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386281.1"
                     /db_xref="GI:153936726"
                     /db_xref="GeneID:5400840"
                     /db_xref="Pathema:CLC_0386"
                     /translation="MRIGFDHEKYLEEQSKYILERVNNYDKLYLEFGGKLLFDLHAKR
                     VLPGFDENAKIKLLHKLKEKVEIIICLYAGDIERNKIRGDFGITYDVDVLRLIDDLRG
                     YDLEVNSVVITRYSGQPATNIFINKLERRGIKVYKHEATKGYPTDVDTIVSDEGYGKN
                     PYIETTKPIVVVTAPGPGSGKLATCLSQLYHEYKRGNVAGYSKFETFPVWNVPLKHPL
                     NIAYESATVDLKDVNMIDSFHFDAYNKVAVNYNRDIESFPVLKRIIEKITGEESVYKS
                     PTDMGVNRVGFGIVDDEVVKEASKQEIIRRAFKTACEYKKGYVDKETFHRAKLIMEEM
                     NLKEEDRKVVIPARKYAAKLKERANKSETCTVVALELEDGTILTGRSSELMDGTAAVI
                     LNAVKHYANISDEIHLISPVILEPIINLKVKTLGSKRTALSCEEVLIALSICAATNPT
                     AQVAMCKLPMLKGCQAHSTTILSTNEEQTFRKLGIDVTCDPEYISESLYYNN"
     misc_feature    374820..376322
                     /locus_tag="CLC_0386"
                     /note="Uncharacterized protein conserved in bacteria
                     [Function unknown]; Region: COG4868"
                     /db_xref="CDD:227205"
     misc_feature    374820..376322
                     /locus_tag="CLC_0386"
                     /note="hypothetical protein; Provisional; Region:
                     PRK13663"
                     /db_xref="CDD:184220"
     gene            376652..377203
                     /locus_tag="CLC_0387"
                     /db_xref="GeneID:5401107"
                     /db_xref="Pathema:CLC_0387"
     CDS             376652..377203
                     /locus_tag="CLC_0387"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386282.1"
                     /db_xref="GI:153935646"
                     /db_xref="GeneID:5401107"
                     /db_xref="Pathema:CLC_0387"
                     /translation="MLETIILALIMAKLKGYEIKPLFKSWHIYPVVTIELIYIIIQIN
                     IFLENYSLIRYAKILEAIYICSYLFIIIKYEQYTSAIIGAIFILIGSMSNKIAIGVNN
                     GRMPVFPTLSYFTGYAKPYSFVKVNDIHILGGSSTKFKFLTDIIDVGYSIMSIGDIFI
                     RLFVFIVIFNTIKHINNIKSIKI"
     gene            377382..377849
                     /locus_tag="CLC_0388"
                     /db_xref="GeneID:5399571"
                     /db_xref="Pathema:CLC_0388"
     CDS             377382..377849
                     /locus_tag="CLC_0388"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386283.1"
                     /db_xref="GI:153934885"
                     /db_xref="GeneID:5399571"
                     /db_xref="Pathema:CLC_0388"
                     /translation="MLKLSIVEFVARATPEAFLLIFAVYTFSNTKMNKKNYLLSSFLM
                     LIMIFIIRSLPISYGIHTILSIMVLILLSYIINRIDVIRAVKSTIITIILQLICEGTN
                     IFIIQYILKKNMNHIFRDPNLKTIYGIPSLIIFACIIVLRYIRLLKRKELQYD"
     gene            377842..378531
                     /locus_tag="CLC_0389"
                     /db_xref="GeneID:5400249"
                     /db_xref="Pathema:CLC_0389"
     CDS             377842..378531
                     /locus_tag="CLC_0389"
                     /note="identified by match to protein family HMM PF04647"
                     /codon_start=1
                     /transl_table=11
                     /product="accessory gene regulator protein B"
                     /protein_id="YP_001386284.1"
                     /db_xref="GI:153934505"
                     /db_xref="GeneID:5400249"
                     /db_xref="Pathema:CLC_0389"
                     /translation="MINTETISNNIAKKIASELNLDNDKKEVIAYGTFALFQTIFSIF
                     LIIIFGYLFNVQIEALMISFTISILRKSSGGVHATSPNNCAIIGTIICVGFAIIVVFL
                     TSSLINLNIILFLGVIIFVWSYYIIYKLAPVDSKAKPIQKSKRVKKLKKSSIITLSVY
                     LVIILINFILYYKMMNKKYIIYSLCVYSGIVWQTFTLTRYGHLVVKKLDDFLNYMVDI
                     KKGDKSHEKIK"
     misc_feature    377860..378459
                     /locus_tag="CLC_0389"
                     /note="Accessory gene regulator B; Region: AgrB;
                     pfam04647"
                     /db_xref="CDD:147012"
     gene            378515..378649
                     /locus_tag="CLC_0390"
                     /db_xref="GeneID:5401089"
                     /db_xref="Pathema:CLC_0390"
     CDS             378515..378649
                     /locus_tag="CLC_0390"
                     /codon_start=1
                     /transl_table=11
                     /product="lipoprotein"
                     /protein_id="YP_001386285.1"
                     /db_xref="GI:153937195"
                     /db_xref="GeneID:5401089"
                     /db_xref="Pathema:CLC_0390"
                     /translation="MKKLNKKVLMLVATFTTLLASIVASSACYWCVYQPKEPKCLREE
                     "
     misc_feature    378551..378640
                     /locus_tag="CLC_0390"
                     /note="cyclic lactone autoinducer peptide; Region:
                     quorum_AgrD; TIGR04223"
                     /db_xref="CDD:234508"
     gene            378721..380424
                     /locus_tag="CLC_0391"
                     /db_xref="GeneID:5401815"
                     /db_xref="Pathema:CLC_0391"
     CDS             378721..380424
                     /locus_tag="CLC_0391"
                     /note="identified by match to protein family HMM PF00990;
                     match to protein family HMM PF01966; match to protein
                     family HMM TIGR00254"
                     /codon_start=1
                     /transl_table=11
                     /product="diguanylate cyclase"
                     /protein_id="YP_001386286.1"
                     /db_xref="GI:153935963"
                     /db_xref="GeneID:5401815"
                     /db_xref="Pathema:CLC_0391"
                     /translation="MNDVGNNKRNQINNIVSVVKLCSLLFSAIAIFKCFFSGNNKALD
                     YKNNMSAIHIISTTILIFSLIYCIWVFLTTNKFRGRYNKRIYFIENIVLILLFFVVVL
                     GTGTYASQYKFLFLFMIIITTIQSGMKYGIIIACLASFIILIMDIVCAPNLVVNEYFE
                     QDLILAGVFILTAWPLGFYVKVENEHIEKLESLVNKDGLTDVYNHRFFHDALSKEVIE
                     CEEKNEALSMIFIDIDYFKHYNDLYGHQKGDQVLKTIGEILKNNTRKEDIVARYGGEE
                     FAVLLPNTSEQDAINIAEKIRKKIEYTYFEGEENQPNGNLTVSMGISVYPYKAKSDME
                     LIKSADDALYRAKFFNKNRVEAYTSILDELKNDIDEEHIDLVTSIKTLISVINAKDRY
                     TYGHVERVVLYSRLLADKLKLSEEDKKNFIYGAYMHDIGKINISREILNKKMPLAKEE
                     WEILKQHPVNGVEIIKPVSSLQNISDLILHHHERYDGKGYPDKLKGDNIPFLARALTV
                     VDSFDAMTSNRPYNRRKTYEEAIEELKRCSGTQFDSYIAEKFIEVIIENKDSFDDLSL
                     L"
     misc_feature    379027..379278
                     /locus_tag="CLC_0391"
                     /note="Domain of unknown function (DUF4118); Region:
                     DUF4118; pfam13493"
                     /db_xref="CDD:222175"
     misc_feature    379282..379791
                     /locus_tag="CLC_0391"
                     /note="c-di-GMP synthetase (diguanylate cyclase, GGDEF
                     domain) [Signal    transduction mechanisms]; Region:
                     COG2199"
                     /db_xref="CDD:225109"
     misc_feature    379303..379785
                     /locus_tag="CLC_0391"
                     /note="Diguanylate-cyclase (DGC) or GGDEF domain; Region:
                     GGDEF; cd01949"
                     /db_xref="CDD:143635"
     misc_feature    order(379414..379416,379543..379545)
                     /locus_tag="CLC_0391"
                     /note="metal binding site [ion binding]; metal-binding
                     site"
                     /db_xref="CDD:143635"
     misc_feature    order(379429..379431,379438..379443,379453..379455,
                     379465..379467,379531..379533,379537..379548)
                     /locus_tag="CLC_0391"
                     /note="active site"
                     /db_xref="CDD:143635"
     misc_feature    order(379519..379521,379603..379605)
                     /locus_tag="CLC_0391"
                     /note="I-site; other site"
                     /db_xref="CDD:143635"
     misc_feature    <379684..380406
                     /locus_tag="CLC_0391"
                     /note="c-di-GMP phosphodiesterase class II (HD-GYP domain)
                     [Signal transduction mechanisms]; Region: COG2206"
                     /db_xref="CDD:225116"
     misc_feature    379891..380322
                     /locus_tag="CLC_0391"
                     /note="Metal dependent phosphohydrolases with conserved
                     'HD' motif; Region: HDc; cd00077"
                     /db_xref="CDD:238032"
     misc_feature    order(379906..379908,380002..380007,380248..380250)
                     /locus_tag="CLC_0391"
                     /note="Zn2+ binding site [ion binding]; other site"
                     /db_xref="CDD:238032"
     misc_feature    380005..380007
                     /locus_tag="CLC_0391"
                     /note="Mg2+ binding site [ion binding]; other site"
                     /db_xref="CDD:238032"
     gene            380655..381164
                     /locus_tag="CLC_0392"
                     /db_xref="GeneID:5398703"
                     /db_xref="Pathema:CLC_0392"
     CDS             380655..381164
                     /locus_tag="CLC_0392"
                     /note="identified by match to protein family HMM PF00583"
                     /codon_start=1
                     /transl_table=11
                     /product="acetyltransferase"
                     /protein_id="YP_001386287.1"
                     /db_xref="GI:153935236"
                     /db_xref="GeneID:5398703"
                     /db_xref="Pathema:CLC_0392"
                     /translation="MEDNNVELRQEVFKSDAAIIANWLEDTEITQYLNEKQNVSKSIK
                     DIMYRVNMPILTHLFNKNGSFFMVTTSEKEPVGFLRLVPKNNVTEMVIVIGDKDKWGK
                     GLGTNAILEGLKHAFFQWRADEVVAKINFKNQRSRRVFRKIGFTEDKELATEMQYSMS
                     IKEFLELVA"
     misc_feature    380697..381092
                     /locus_tag="CLC_0392"
                     /note="Acetyltransferase (GNAT) domain; Region:
                     Acetyltransf_3; pfam13302"
                     /db_xref="CDD:222034"
     misc_feature    380874..381092
                     /locus_tag="CLC_0392"
                     /note="Acetyltransferase (GNAT) family; Region:
                     Acetyltransf_1; pfam00583"
                     /db_xref="CDD:216007"
     gene            381561..382013
                     /locus_tag="CLC_0393"
                     /db_xref="GeneID:5398488"
                     /db_xref="Pathema:CLC_0393"
     CDS             381561..382013
                     /locus_tag="CLC_0393"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386288.1"
                     /db_xref="GI:153936600"
                     /db_xref="GeneID:5398488"
                     /db_xref="Pathema:CLC_0393"
                     /translation="MFKLSILEFFLIAIPESFIFTIGIYFLSKRFFDKKRLIIMSLLS
                     AVEIYWVRMLPIHFGVHIGINIIFLILLSANIGKISIKDAISYNMVMMIILSTSEFIG
                     IFVLYNVFKINMSLMKPRSLIKIIYFIPSFTLFVFSVFTMNKFINREE"
     gene            382040..383887
                     /locus_tag="CLC_0394"
                     /db_xref="GeneID:5398894"
                     /db_xref="Pathema:CLC_0394"
     CDS             382040..383887
                     /locus_tag="CLC_0394"
                     /EC_number="2.7.3.-"
                     /note="identified by match to protein family HMM PF00512;
                     match to protein family HMM PF02518; match to protein
                     family HMM TIGR00229"
                     /codon_start=1
                     /transl_table=11
                     /product="sensory box histidine kinase"
                     /protein_id="YP_001386289.1"
                     /db_xref="GI:153934988"
                     /db_xref="GeneID:5398894"
                     /db_xref="Pathema:CLC_0394"
                     /translation="MNLDKIEIRNWSHDKKIYNSMLIVKFIILLFCGGAIYLDYAEKN
                     NKNISQNFYCNALNLVIIIICLVSVYFIWMFISIKAFKFERIKTIQVIENTISIVIFT
                     FIIMMSGSYKSSYKFLFLVAIITATIQLGMKHGIITSLVSSIIILSIDLILAPKAPVN
                     IYFETDLILVGVFIMTAWPLGYYVNIQKEDLRQKEEEVNILANKLDQKEMQKRCMEQL
                     LIKNENCYNLLIRNSKDAILVHRYGKIIFANERLKQMLGYKKEYNFEDIDIKSLIPKD
                     EYNTVKNKLENLYYGSENVVNFQHNVINNKEKTIQNTSTYVIYDGMPTIFSILHDVTS
                     KIQVEKFEQDVKKNIELLNESREYNKLITEFLSNISHELKTPLNVIFTAVQLLGFYEK
                     DVDYEKQDKYLKLIKQNCYRLMKLINNLLDTTKLDSGYLKLNLVNYNIVNLIEEITLS
                     VTSYAESKGINIIFDTNVEEKIIAVDTDKIERIILNLLSNSIKFTNPGGNIFVNVKDC
                     GENVYVHVKDTGVGIPSDKLESIFERFFQVDKTLKKNKEGTGIGLHLVKSFVEMHNGT
                     VHIKSELGQGTEFIIKLPAVVCEEQIKSKNIVYEANIERINMEFSDINQ"
     misc_feature    382307..382609
                     /locus_tag="CLC_0394"
                     /note="Domain of unknown function (DUF4118); Region:
                     DUF4118; pfam13493"
                     /db_xref="CDD:222175"
     misc_feature    382538..383791
                     /locus_tag="CLC_0394"
                     /note="heavy metal sensor kinase; Region: cztS_silS_copS;
                     TIGR01386"
                     /db_xref="CDD:233391"
     misc_feature    382715..382903
                     /locus_tag="CLC_0394"
                     /note="PAS domain; Region: PAS; smart00091"
                     /db_xref="CDD:214512"
     misc_feature    383114..383314
                     /locus_tag="CLC_0394"
                     /note="Histidine Kinase A (dimerization/phosphoacceptor)
                     domain; Histidine Kinase A dimers are formed through
                     parallel association of 2 domains creating 4-helix
                     bundles; usually these domains contain a conserved His
                     residue and are activated via...; Region: HisKA; cd00082"
                     /db_xref="CDD:119399"
     misc_feature    order(383132..383134,383144..383146,383156..383158,
                     383165..383167,383177..383179,383186..383188,
                     383243..383245,383255..383257,383264..383266,
                     383276..383278,383285..383287,383297..383299)
                     /locus_tag="CLC_0394"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:119399"
     misc_feature    383150..383152
                     /locus_tag="CLC_0394"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:119399"
     misc_feature    383477..383788
                     /locus_tag="CLC_0394"
                     /note="Histidine kinase-like ATPases; This family includes
                     several ATP-binding proteins for example: histidine
                     kinase, DNA gyrase B, topoisomerases, heat shock protein
                     HSP90, phytochrome-like ATPases and DNA mismatch repair
                     proteins; Region: HATPase_c; cd00075"
                     /db_xref="CDD:238030"
     misc_feature    order(383495..383497,383507..383509,383516..383518,
                     383585..383587,383591..383593,383597..383599,
                     383603..383608,383687..383698,383744..383746,
                     383750..383752,383765..383770,383774..383776)
                     /locus_tag="CLC_0394"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    383507..383509
                     /locus_tag="CLC_0394"
                     /note="Mg2+ binding site [ion binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    order(383597..383599,383603..383605,383687..383689,
                     383693..383695)
                     /locus_tag="CLC_0394"
                     /note="G-X-G motif; other site"
                     /db_xref="CDD:238030"
     gene            384146..384583
                     /locus_tag="CLC_0395"
                     /db_xref="GeneID:5400354"
                     /db_xref="Pathema:CLC_0395"
     CDS             384146..384583
                     /locus_tag="CLC_0395"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386290.1"
                     /db_xref="GI:153934648"
                     /db_xref="GeneID:5400354"
                     /db_xref="Pathema:CLC_0395"
                     /translation="MRLTPEAFLFIFIIQAFSNSKINKNKYVLSSILFSVIIYSIRLL
                     PIHYGVHTVLNIIAIILICTFINQVAPIKAITYSLILVSFLALSEALNLYFVYKIFGE
                     NITNILKDPLKKCIYLMPSIIVLVIIVLFILKIKDRRVKDVFD"
     gene            384570..385199
                     /locus_tag="CLC_0396"
                     /db_xref="GeneID:5398312"
                     /db_xref="Pathema:CLC_0396"
     CDS             384570..385199
                     /locus_tag="CLC_0396"
                     /note="identified by match to protein family HMM PF04647"
                     /codon_start=1
                     /transl_table=11
                     /product="accessory gene regulator protein B"
                     /protein_id="YP_001386291.1"
                     /db_xref="GI:153935382"
                     /db_xref="GeneID:5398312"
                     /db_xref="Pathema:CLC_0396"
                     /translation="MFLIEQLSNKIGNKIANNLELDKDTEEIITYGAFSVLQAIWALS
                     CVVILGAICNVLIESVIIALTAATYRKYSGGMHANTPNKCAILGAIVFVGFALIVKNI
                     NIGVNLFLPVICIFTFIYSYYAIYKFVPVDTKAKPIENESEILKLRRYSFFIISILIL
                     IEVLLLLFYFKYKNEMLIYYAKCIIAGVLWQSFTLTPLAKRVFANIAME"
     misc_feature    384585..385178
                     /locus_tag="CLC_0396"
                     /note="Accessory gene regulator B; Region: AgrB;
                     pfam04647"
                     /db_xref="CDD:147012"
     gene            385294..385428
                     /locus_tag="CLC_0397"
                     /db_xref="GeneID:5399097"
                     /db_xref="Pathema:CLC_0397"
     CDS             385294..385428
                     /locus_tag="CLC_0397"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386292.1"
                     /db_xref="GI:153936997"
                     /db_xref="GeneID:5399097"
                     /db_xref="Pathema:CLC_0397"
                     /translation="MKKQLKEKCVKVTAKLLKSVAYSAADSACVVGIYQPKEPKSLRK
                     "
     misc_feature    385315..385422
                     /locus_tag="CLC_0397"
                     /note="cyclic lactone autoinducer peptide; Region:
                     quorum_AgrD; TIGR04223"
                     /db_xref="CDD:234508"
     gene            385509..387362
                     /locus_tag="CLC_0398"
                     /db_xref="GeneID:5400857"
                     /db_xref="Pathema:CLC_0398"
     CDS             385509..387362
                     /locus_tag="CLC_0398"
                     /EC_number="2.7.3.-"
                     /note="identified by match to protein family HMM PF00512;
                     match to protein family HMM PF02518; match to protein
                     family HMM TIGR00229"
                     /codon_start=1
                     /transl_table=11
                     /product="sensory box histidine kinase"
                     /protein_id="YP_001386293.1"
                     /db_xref="GI:153937779"
                     /db_xref="GeneID:5400857"
                     /db_xref="Pathema:CLC_0398"
                     /translation="MSEINQSREKNIYNITCIVKLISLLFSSIILYNYLSQNNCANKN
                     SYNNTVFAILLSLIMTVIYLIWSFFTVKTKMFKNILFIQRIENIFFILIFTILVIMSG
                     KYNSQYKYLFLFIIITTTIQRGLKSGMFISIISSVIILTIDLSMAKCNGINTYFENDL
                     IFSGVFILTAVSLGYYVKLGNESIKQKNIQLENLNKKLNEKDSQRKYIEELLFKNDTC
                     YNLLIENARDAIIIHRKDKIVFANESAAELLICSNNNELQNLNINSFILKEEQKKIRN
                     KLELVYRNKRDIVCVEQVIQNNRREKINVESISTYIIYNNKPAILSILRDITSQKQVE
                     KLQKDVEKNIELLNESREYNKLITDFLANISHELKTPLNVIFTAVQILDLYKKDAESY
                     DKKEQYIKVIKQNCYRLMRLINNLLDTTKLDSGYLKLNLVNCNIVNLVEEITLSVVYY
                     AESKNINIIFDTDVEEKIMAVDPDKIERIVLNLLSNAIKFTGSGGNIYVTVKDFEDNI
                     VISVKDTGIGIPEDKIENIFDRFVQVDKTLRRNKEGSGIGLYLVKSFVNMHEGTIDIQ
                     SEIGKGSEFIINIPVKLVKEDLEKENNVFYSPSKEYVDMEFADIYSEVSSK"
     misc_feature    386163..386510
                     /locus_tag="CLC_0398"
                     /note="PAS domain S-box; Region: sensory_box; TIGR00229"
                     /db_xref="CDD:232884"
     misc_feature    386163..>386255
                     /locus_tag="CLC_0398"
                     /note="PAS domain; Region: PAS_8; pfam13188"
                     /db_xref="CDD:221967"
     misc_feature    <386529..387272
                     /locus_tag="CLC_0398"
                     /note="Signal transduction histidine kinase [Signal
                     transduction mechanisms]; Region: BaeS; COG0642"
                     /db_xref="CDD:223715"
     misc_feature    386568..386771
                     /locus_tag="CLC_0398"
                     /note="Histidine Kinase A (dimerization/phosphoacceptor)
                     domain; Histidine Kinase A dimers are formed through
                     parallel association of 2 domains creating 4-helix
                     bundles; usually these domains contain a conserved His
                     residue and are activated via...; Region: HisKA; cd00082"
                     /db_xref="CDD:119399"
     misc_feature    order(386586..386588,386598..386600,386610..386612,
                     386619..386621,386631..386633,386640..386642,
                     386700..386702,386712..386714,386721..386723,
                     386733..386735,386742..386744,386754..386756)
                     /locus_tag="CLC_0398"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:119399"
     misc_feature    386604..386606
                     /locus_tag="CLC_0398"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:119399"
     misc_feature    386934..387245
                     /locus_tag="CLC_0398"
                     /note="Histidine kinase-like ATPases; This family includes
                     several ATP-binding proteins for example: histidine
                     kinase, DNA gyrase B, topoisomerases, heat shock protein
                     HSP90, phytochrome-like ATPases and DNA mismatch repair
                     proteins; Region: HATPase_c; cd00075"
                     /db_xref="CDD:238030"
     misc_feature    order(386952..386954,386964..386966,386973..386975,
                     387042..387044,387048..387050,387054..387056,
                     387060..387065,387144..387155,387201..387203,
                     387207..387209,387222..387227,387231..387233)
                     /locus_tag="CLC_0398"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    386964..386966
                     /locus_tag="CLC_0398"
                     /note="Mg2+ binding site [ion binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    order(387054..387056,387060..387062,387144..387146,
                     387150..387152)
                     /locus_tag="CLC_0398"
                     /note="G-X-G motif; other site"
                     /db_xref="CDD:238030"
     gene            387595..388461
                     /locus_tag="CLC_0399"
                     /db_xref="GeneID:5398482"
                     /db_xref="Pathema:CLC_0399"
     CDS             387595..388461
                     /locus_tag="CLC_0399"
                     /note="identified by match to protein family HMM PF01171"
                     /codon_start=1
                     /transl_table=11
                     /product="PP-loop family protein"
                     /protein_id="YP_001386294.1"
                     /db_xref="GI:153935004"
                     /db_xref="GeneID:5398482"
                     /db_xref="Pathema:CLC_0399"
                     /translation="MSGIAGKGCEVLVPFNERIPLKDIERSIVKKYRKHIWSKFVKAI
                     KEYNLVEDGDKIAVAVSGGKDSILMAKLFQELKKHGQINFEIEFISMDPGYHEDIRKL
                     LVDNCNYLNIPINLFNSDIFKVIDDIAKDYPCYMCARMRRGALYSKAQELGCNKLALG
                     HHFNDVIETILLNVLYAGNFKTMLPKFRSTNFEGLELIRPLYYIEEEYIQKFIQNSGI
                     WPLNCACMVAAGKIGNKRHEIKDLIKELKKNFKDVDKSIFMSSKNVNMEAILGWEKNK
                     EKYSYLDFYDED"
     misc_feature    387682..388386
                     /locus_tag="CLC_0399"
                     /note="tRNA 2-thiocytidine biosynthesis protein TtcA;
                     Provisional; Region: PRK10696"
                     /db_xref="CDD:236737"
     misc_feature    387757..388269
                     /locus_tag="CLC_0399"
                     /note="This is a subfamily of Adenine nucleotide alpha
                     hydrolases superfamily.Adeninosine nucleotide alpha
                     hydrolases superfamily  includes N type ATP PPases and ATP
                     sulphurylases. It forms a apha/beta/apha fold which  binds
                     to Adenosine group.  This subfamily; Region:
                     Alpha_ANH_like_II; cd01993"
                     /db_xref="CDD:238951"
     misc_feature    order(387769..387777,387781..387792,387862..387864,
                     387868..387870)
                     /locus_tag="CLC_0399"
                     /note="Ligand Binding Site [chemical binding]; other site"
                     /db_xref="CDD:238951"
     gene            complement(388585..389130)
                     /locus_tag="CLC_0400"
                     /db_xref="GeneID:5398726"
                     /db_xref="Pathema:CLC_0400"
     CDS             complement(388585..389130)
                     /locus_tag="CLC_0400"
                     /note="identified by match to protein family HMM PF01381;
                     match to protein family HMM PF07883"
                     /codon_start=1
                     /transl_table=11
                     /product="DNA-binding protein"
                     /protein_id="YP_001386295.1"
                     /db_xref="GI:153935772"
                     /db_xref="GeneID:5398726"
                     /db_xref="Pathema:CLC_0400"
                     /translation="MINEIAEKIRNLRKEKNLTLKDLSEKTGLSISFLSQVENNSSSL
                     AITSLKKIADALNVPITYFFKSPELHKFLVKKQEREVFELEGSSSKFIRLSGNFTERA
                     MESILVVIPAEKQHGHKFSHPGEEFIYVLEGAIIANIDGEEYFVNEGDSIHFPSTIPH
                     ILSNPLKTDSKILTVVCPAIF"
     misc_feature    complement(388942..389115)
                     /locus_tag="CLC_0400"
                     /note="Helix-turn-helix XRE-family like proteins.
                     Prokaryotic DNA binding proteins belonging to the
                     xenobiotic response element family of transcriptional
                     regulators; Region: HTH_XRE; cd00093"
                     /db_xref="CDD:238045"
     misc_feature    complement(388588..389112)
                     /locus_tag="CLC_0400"
                     /note="DNA-binding transcriptional repressor PuuR;
                     Provisional; Region: PRK09943"
                     /db_xref="CDD:182158"
     misc_feature    complement(order(389014..389016,389089..389091,
                     389101..389103))
                     /locus_tag="CLC_0400"
                     /note="non-specific DNA binding site [nucleotide binding];
                     other site"
                     /db_xref="CDD:238045"
     misc_feature    complement(order(389017..389019,389092..389094))
                     /locus_tag="CLC_0400"
                     /note="salt bridge; other site"
                     /db_xref="CDD:238045"
     misc_feature    complement(order(389011..389016,389026..389028,
                     389035..389037,389068..389073))
                     /locus_tag="CLC_0400"
                     /note="sequence-specific DNA binding site [nucleotide
                     binding]; other site"
                     /db_xref="CDD:238045"
     misc_feature    complement(388603..388770)
                     /locus_tag="CLC_0400"
                     /note="Cupin domain; Region: Cupin_2; pfam07883"
                     /db_xref="CDD:219618"
     gene            389485..390891
                     /locus_tag="CLC_0401"
                     /db_xref="GeneID:5400285"
                     /db_xref="Pathema:CLC_0401"
     CDS             389485..390891
                     /locus_tag="CLC_0401"
                     /note="identified by match to protein family HMM PF00324"
                     /codon_start=1
                     /transl_table=11
                     /product="amino acid permease"
                     /protein_id="YP_001386296.1"
                     /db_xref="GI:153935063"
                     /db_xref="GeneID:5400285"
                     /db_xref="Pathema:CLC_0401"
                     /translation="MKKKIGLWDLVFMNVSALFGIRWIAKSTASSFGLGLGAIPAWVL
                     FAFIFFLPSALICAELAATYPRDGGLYEWVKEAYGEKWGFMVSWLNWTAKLFWYSSFL
                     TFLIVNVSYTLGKPELAGNKMFVLICSLVIFWILSLISTKGMAFAKIFTNVGALGSTV
                     PAILLIVMAFVSVLVFGHKPASTYTVATLTPKLNMDTLAAISSVMFGLAGAETAANFV
                     TEIDDAKKTFPKAILISAAIVGGLYVLGSIAVTMILPVDKITASEGILAALGTVAANL
                     GIGPWFIRIIALGISLSVFGAIILYIASPIKMLFGSVKKGIFTEKFTKVNEHNIPVQA
                     VILQAVIVSIILLTTTLLPSVDAIYNVLVTMTALTSLFPYVLLFRSYIKLRQDRPNEV
                     RPYEMSKNNRKAIFIANMVLIISVIGIVLSAAPVMPTLAENIVYELEMIGGAILVIGI
                     GLWKWNNFVKKTGFREEK"
     misc_feature    389497..390678
                     /locus_tag="CLC_0401"
                     /note="Amino acid permease; Region: AA_permease_2;
                     pfam13520"
                     /db_xref="CDD:222193"
     gene            391010..392092
                     /locus_tag="CLC_0402"
                     /db_xref="GeneID:5398611"
                     /db_xref="Pathema:CLC_0402"
     CDS             391010..392092
                     /locus_tag="CLC_0402"
                     /EC_number="3.4.-.-"
                     /note="identified by match to protein family HMM PF00557;
                     match to protein family HMM PF01321"
                     /codon_start=1
                     /transl_table=11
                     /product="M24 family metallopeptidase"
                     /protein_id="YP_001386297.1"
                     /db_xref="GI:153936720"
                     /db_xref="GeneID:5398611"
                     /db_xref="Pathema:CLC_0402"
                     /translation="MNQERLNKVLEGMKEREIPQMLISDAPAIFYLTGKWIHTGERLI
                     ALYLNENGNHKLFINELFPVTEDLGVEKVWFNDNQDGVEIISKYVEKDKVMGVDKNWP
                     ARFLLRLMELQGGSKFVNGSIIIDRARMFKDEKEKELMRASSKANDAAMEKLYNLFKE
                     NQDLSEKEVGERLAKIYSDLGAERFSFDPIVGYGANAADPHHENDGSKLKEGDCIVLD
                     IGCVKDSYCSDMTRVFFYKSVPEHSKKVYDTVVAANMAGIAAVKPGVRFCDIDKASRD
                     VIEKAGYGKYFTHRTGHSIGIEDHDLGDVSAVNTEEIKPGMIFSIEPGIYLPGEVGVR
                     IEDLVLVTEDGCEVLNKYSKELTIIE"
     misc_feature    391010..392089
                     /locus_tag="CLC_0402"
                     /note="Xaa-Pro aminopeptidase [Amino acid transport and
                     metabolism]; Region: PepP; COG0006"
                     /db_xref="CDD:223085"
     misc_feature    391022..391399
                     /locus_tag="CLC_0402"
                     /note="Creatinase/Prolidase N-terminal domain; Region:
                     Creatinase_N; pfam01321"
                     /db_xref="CDD:216431"
     misc_feature    391421..392047
                     /locus_tag="CLC_0402"
                     /note="Similar to Prolidase and Aminopeptidase P. The
                     members of this subfamily presumably catalyse hydrolysis
                     of Xaa-Pro dipeptides and/or release of any N-terminal
                     amino acid, including proline, that is linked with
                     proline; Region: APP-like; cd01092"
                     /db_xref="CDD:238525"
     misc_feature    order(391610..391612,391661..391663,391694..391696,
                     391886..391888,391973..391975,392015..392017)
                     /locus_tag="CLC_0402"
                     /note="active site"
                     /db_xref="CDD:238525"
     gene            392520..395108
                     /gene="adhE"
                     /locus_tag="CLC_0403"
                     /db_xref="GeneID:5400197"
                     /db_xref="Pathema:CLC_0403"
     CDS             392520..395108
                     /gene="adhE"
                     /locus_tag="CLC_0403"
                     /EC_number="1.1.1.1"
                     /EC_number="1.2.1.10"
                     /note="identified by match to protein family HMM PF00171;
                     match to protein family HMM PF00465"
                     /codon_start=1
                     /transl_table=11
                     /product="bifunctional acetaldehyde-CoA/alcohol
                     dehydrogenase"
                     /protein_id="YP_001386298.1"
                     /db_xref="GI:153937530"
                     /db_xref="GeneID:5400197"
                     /db_xref="Pathema:CLC_0403"
                     /translation="MKITTTEELIRKIEKIKEAQKIYSTYSQDKVDKIFKAAAIAANK
                     ERIKLAKMAVEETGMGIVEDKVIKNHFASEYIYNKYKDEKTCGVIEKDEAFGLTKIAE
                     PIGVIAAIVPTTNPTSTAIFKALIALKTRNGIIFSPHPRAKKSTIMAAKIVLDAAVQA
                     GAPKEIIGWIDEPTLELSNAVMSNSNLVLATGGPGMVKAAYSSGKPAIGVGPGNVPAI
                     IHETADIKMAVSSVVLSKTFDNGMICASEQSVIVMNSIYEEVKKEFVIRGAYVLNKEE
                     IEKVKKIILVNGNVNAKIVGQTPQKIGEMAGIQVPDWAKLLVGEVQSVELEEPFSHEK
                     LSPVLAMYKVKTYEEALTKAERLVELGGFGHTSSLYINTVKCKEEVEKFSNNMKTGRT
                     IINMPSAQGGIGDIYNFKLAPSLTLGCGSWGGNSVSENVGPKHLLNIKNVAERRENML
                     WFRVPEKVYFKYGCLPIALKELKRMNKKKAFIVTDKVLYELGVAKKATDVLDEIGINY
                     KVFFDVAPDPTLETAKKGAKEMVDFNPDTIIAIGGGSAMDAAKIMWVMYEHPEVEFED
                     LAMRFMDIRKRVYEFPHMGDKAMMISVATSAGTGSEVTPFAVITDEKTGVKYPLADYE
                     LTPDMAIVDADLMLNMPKGLTAASGIDALTHAVEAYVSVMASEYTDGLCLEAIKTIFE
                     YLPKAYKEGAQDIEAREKMAHASTIAGMAFANAFLGVCHSMAHKLGSMHHVPHGIANA
                     LLINETIKFNSEDMPRKQTAFPQYKYPNAKAKYANIADYLSLGGKTPEEKVELLIKAI
                     DKLKAEVNIPTSIEEAGVSKDKFFKTLDEMSEQAFDDQCTGANPRYPLISEIKEMYTN
                     VFSTKK"
     misc_feature    392574..395093
                     /gene="adhE"
                     /locus_tag="CLC_0403"
                     /note="bifunctional acetaldehyde-CoA/alcohol
                     dehydrogenase; Provisional; Region: PRK13805"
                     /db_xref="CDD:237515"
     misc_feature    392574..393854
                     /gene="adhE"
                     /locus_tag="CLC_0403"
                     /note="Coenzyme A acylating aldehyde dehydrogenase (ACDH),
                     ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122"
                     /db_xref="CDD:143440"
     misc_feature    393249..393251
                     /gene="adhE"
                     /locus_tag="CLC_0403"
                     /note="putative catalytic cysteine [active]"
                     /db_xref="CDD:143440"
     misc_feature    393882..395084
                     /gene="adhE"
                     /locus_tag="CLC_0403"
                     /note="C-terminal alcohol dehydrogenase domain of the
                     acetaldehyde dehydrogenase-alcohol dehydrogenase
                     bifunctional two-domain protein (AAD); Region: AAD_C;
                     cd08178"
                     /db_xref="CDD:173937"
     misc_feature    order(393972..393974,394146..394154,394161..394163,
                     394170..394172,394302..394307,394311..394313,
                     394368..394373,394425..394427,394449..394451,
                     394470..394472,394482..394484,394680..394682,
                     394692..394694,394722..394724)
                     /gene="adhE"
                     /locus_tag="CLC_0403"
                     /note="putative active site [active]"
                     /db_xref="CDD:173937"
     misc_feature    order(394470..394472,394482..394484,394680..394682,
                     394722..394724)
                     /gene="adhE"
                     /locus_tag="CLC_0403"
                     /note="metal binding site [ion binding]; metal-binding
                     site"
                     /db_xref="CDD:173937"
     gene            395427..395714
                     /locus_tag="CLC_0404"
                     /db_xref="GeneID:5400052"
                     /db_xref="Pathema:CLC_0404"
     CDS             395427..395714
                     /locus_tag="CLC_0404"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386299.1"
                     /db_xref="GI:153935222"
                     /db_xref="GeneID:5400052"
                     /db_xref="Pathema:CLC_0404"
                     /translation="MSVFVVGGDRIQTIKENLKEMGFNKISHVTGRRTRHRKIQVPTN
                     TDLVLILTDYVGHTVVESIKEQSKSQNTRIVYSRRAWTSIEKTLKNTIGEN"
     misc_feature    395427..395711
                     /locus_tag="CLC_0404"
                     /note="Uncharacterized protein conserved in bacteria
                     (DUF2325); Region: DUF2325; cl01811"
                     /db_xref="CDD:242721"
     gene            395777..396367
                     /locus_tag="CLC_0405"
                     /db_xref="GeneID:5398305"
                     /db_xref="Pathema:CLC_0405"
     CDS             395777..396367
                     /locus_tag="CLC_0405"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386300.1"
                     /db_xref="GI:153936931"
                     /db_xref="GeneID:5398305"
                     /db_xref="Pathema:CLC_0405"
                     /translation="MSRNLVTKYMNVINAMENKKYLYSLLLYLIAPTLDGVKPSTIVT
                     LSTSGKNLDLLWSKYKKEFLDIYKINYIELKKTDKCTTILYYHKEALNKVLYNKYNLE
                     FLKEIGYRDFSNEESFLFKLKSRFKDTCPHEIGIFLGIPIEEVKSFIEDPKRECIYCG
                     YWKVYNNIQKAKKQFTTYDISRTNMILEVLEKELNV"
     misc_feature    395864..396349
                     /locus_tag="CLC_0405"
                     /note="Protein of unknown function (DUF3793); Region:
                     DUF3793; pfam12672"
                     /db_xref="CDD:221701"
     gene            complement(396643..397122)
                     /locus_tag="CLC_0406"
                     /db_xref="GeneID:5398364"
                     /db_xref="Pathema:CLC_0406"
     CDS             complement(396643..397122)
                     /locus_tag="CLC_0406"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386301.1"
                     /db_xref="GI:153934569"
                     /db_xref="GeneID:5398364"
                     /db_xref="Pathema:CLC_0406"
                     /translation="MNIIMVIYHDVGGAHSSCVAANIHVKNLPSNTVPSKEDLLKLPT
                     FDKLTKKDVGHLKFIGIDEFGHKVYTISVRYKPNIVIPALRDMYTELNGSGNDLILVS
                     SQPFVNTWMKIGGFTSRGLGIVPIGRPIVTYGTLKSYMGLVDLVEKVKKKIQLDVPM"
     misc_feature    complement(396667..397110)
                     /locus_tag="CLC_0406"
                     /note="Protein of unknown function (DUF3189); Region:
                     DUF3189; pfam11385"
                     /db_xref="CDD:151825"
     gene            complement(397465..398475)
                     /locus_tag="CLC_0407"
                     /db_xref="GeneID:5401145"
                     /db_xref="Pathema:CLC_0407"
     CDS             complement(397465..398475)
                     /locus_tag="CLC_0407"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386302.1"
                     /db_xref="GI:153937240"
                     /db_xref="GeneID:5401145"
                     /db_xref="Pathema:CLC_0407"
                     /translation="MYPFFDNPNYTNTYATNEDFVCPYFLDYYNNSQNNYKNFRGENY
                     DFEDTEENIENRNIEKTEYEGLFRAWNPWTNLGGDITSGLGASSWAANRIDLFARGRG
                     GELIHNWFDNGKWNYWENLGGILTSSPKAVSWGFNRIDVVCRGTDNAMYHKWWDGSTW
                     SGFENLGGQLTSAPTICSWASNRLDCFARGTDNQLHHKWWDGSSWSQWEALGGSLTSG
                     PGAVSWGPNRIDVFARGRNNTLIHKWWNGTSWSQWEDLGGFLTSAPCASSRGQNRIDV
                     FARGRNNRLMYKYWDGSRWSDWTFLQGYLTSEPVSVSRNSSSINVFAKGPRENVIERI
                     YS"
     gene            398579..399106
                     /locus_tag="CLC_0408"
                     /db_xref="GeneID:5399297"
                     /db_xref="Pathema:CLC_0408"
     CDS             398579..399106
                     /locus_tag="CLC_0408"
                     /note="identified by match to protein family HMM PF01569"
                     /codon_start=1
                     /transl_table=11
                     /product="PAP2 family protein"
                     /protein_id="YP_001386303.1"
                     /db_xref="GI:153936486"
                     /db_xref="GeneID:5399297"
                     /db_xref="Pathema:CLC_0408"
                     /translation="MNFIQNMDIYLLDFIHKSIANDFLDKIMIFITSIGNLGLIWIAI
                     SVLLLISKKYRRVGMLCIATLILSSLIGEVVLKNLVQRGRPFTAIEGINLLVKAPKSF
                     SFPSGHTASSFAVATVIGRKIKSFKLPIYILAFAIAFSRLYLYVHYPSDVLVGALIGI
                     ISANIILYIYNKQNF"
     misc_feature    398582..399103
                     /locus_tag="CLC_0408"
                     /note="Membrane-associated phospholipid phosphatase [Lipid
                     metabolism]; Region: PgpB; COG0671"
                     /db_xref="CDD:223743"
     misc_feature    398585..399088
                     /locus_tag="CLC_0408"
                     /note="PAP2_like proteins, a super-family of histidine
                     phosphatases and vanadium haloperoxidases, includes type 2
                     phosphatidic acid phosphatase or lipid phosphate
                     phosphatase (LPP), Glucose-6-phosphatase,
                     Phosphatidylglycerophosphatase B and bacterial acid...;
                     Region: PAP2_like; cl00474"
                     /db_xref="CDD:241889"
     misc_feature    order(398807..398809,398828..398830,398894..398902,
                     398999..399001,399017..399019,399029..399031)
                     /locus_tag="CLC_0408"
                     /note="active site"
                     /db_xref="CDD:238813"
     gene            399517..400329
                     /locus_tag="CLC_0409"
                     /db_xref="GeneID:5399790"
                     /db_xref="Pathema:CLC_0409"
     CDS             399517..400329
                     /locus_tag="CLC_0409"
                     /note="identified by match to protein family HMM PF01522"
                     /codon_start=1
                     /transl_table=11
                     /product="polysaccharide deacetylase"
                     /protein_id="YP_001386304.1"
                     /db_xref="GI:153935711"
                     /db_xref="GeneID:5399790"
                     /db_xref="Pathema:CLC_0409"
                     /translation="MEKKNKILLTTICILLFVVGFFVTKNIIDKNNEKQVMKKEMIND
                     NSKMVIRQMDDKIVFSEYIKDKYDAKQVFEKDGKKIAFLTFDDGPSHLTNDILDILKE
                     YRIKATFFVVGNLAKENKNIIERQIREGHSIGNHTYTHDYKNIYSSVDVFVNEVDKTQ
                     NVIKSIVGSNYDIKLVRFPGGSFGDRLNPYKEAIKKKGYYNMDWNALNGDAEGNNIPK
                     EKLIQNIKNTIEGKNHVVVLMHDCGAKKTTVEALPDIIEHLISQGYEFKALK"
     misc_feature    399589..400323
                     /locus_tag="CLC_0409"
                     /note="Predicted xylanase/chitin deacetylase [Carbohydrate
                     transport and metabolism]; Region: CDA1; COG0726"
                     /db_xref="CDD:223798"
     misc_feature    399751..400320
                     /locus_tag="CLC_0409"
                     /note="Catalytic NodB homology domain of Streptococcus
                     mutans polysaccharide deacetylase PgdA, Bacillus subtilis
                     YheN, and similar proteins; Region: CE4_SmPgdA_like;
                     cd10944"
                     /db_xref="CDD:200569"
     misc_feature    order(399766..399777,399922..399939,400045..400047,
                     400051..400056,400126..400128,400144..400149,
                     400228..400230,400234..400236)
                     /locus_tag="CLC_0409"
                     /note="NodB motif; other site"
                     /db_xref="CDD:200569"
     misc_feature    order(399772..399777,399922..399924,399934..399936,
                     400051..400059,400126..400128,400228..400230,
                     400234..400236)
                     /locus_tag="CLC_0409"
                     /note="active site"
                     /db_xref="CDD:200569"
     misc_feature    order(399772..399774,400045..400047,400144..400146,
                     400234..400236)
                     /locus_tag="CLC_0409"
                     /note="catalytic site [active]"
                     /db_xref="CDD:200569"
     misc_feature    order(399775..399777,399922..399924,399934..399936)
                     /locus_tag="CLC_0409"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:200569"
     gene            400437..401123
                     /locus_tag="CLC_0410"
                     /db_xref="GeneID:5399626"
                     /db_xref="Pathema:CLC_0410"
     CDS             400437..401123
                     /locus_tag="CLC_0410"
                     /note="identified by match to protein family HMM PF00072;
                     match to protein family HMM PF00486"
                     /codon_start=1
                     /transl_table=11
                     /product="DNA-binding response regulator"
                     /protein_id="YP_001386305.1"
                     /db_xref="GI:153934962"
                     /db_xref="GeneID:5399626"
                     /db_xref="Pathema:CLC_0410"
                     /translation="MDKILIVEDESSIRGFVKVNLKMNNFDVIEAETGEEGIEKARKH
                     KPDVVVLDIMLPGVDGLEVCKTLRQEFPNMGIIMLTAKSQDTDKVSGLEYGADDYIIK
                     PFNPLELTLRIKAILRRVNAVKESDDNIITGGPFKIDLYSKKIYKNEEEIDITPTEYL
                     LMKIFIENPGKAFNRDELLDLVWGYDFMGDSKIVDVNIRRLRSKIEETPSEPKFIKTV
                     WGTGYRWQNT"
     misc_feature    400443..401117
                     /locus_tag="CLC_0410"
                     /note="Response regulators consisting of a CheY-like
                     receiver domain and a winged-helix DNA-binding domain
                     [Signal transduction mechanisms / Transcription]; Region:
                     OmpR; COG0745"
                     /db_xref="CDD:223816"
     misc_feature    400449..400787
                     /locus_tag="CLC_0410"
                     /note="Signal receiver domain; originally thought to be
                     unique to bacteria (CheY, OmpR, NtrC, and PhoB), now
                     recently identified in eukaroytes ETR1 Arabidopsis
                     thaliana; this domain receives the signal from the sensor
                     partner in a two-component systems; Region: REC; cd00156"
                     /db_xref="CDD:238088"
     misc_feature    order(400458..400463,400590..400592,400614..400616,
                     400674..400676,400731..400733,400740..400745)
                     /locus_tag="CLC_0410"
                     /note="active site"
                     /db_xref="CDD:238088"
     misc_feature    400590..400592
                     /locus_tag="CLC_0410"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:238088"
     misc_feature    order(400599..400604,400608..400616)
                     /locus_tag="CLC_0410"
                     /note="intermolecular recognition site; other site"
                     /db_xref="CDD:238088"
     misc_feature    400740..400748
                     /locus_tag="CLC_0410"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238088"
     misc_feature    400827..401111
                     /locus_tag="CLC_0410"
                     /note="Effector domain of response regulator. Bacteria and
                     certain eukaryotes like protozoa and higher plants use
                     two-component signal transduction systems to detect and
                     respond to changes in the environment. The system consists
                     of a sensor histidine kinase and...; Region: trans_reg_C;
                     cd00383"
                     /db_xref="CDD:238225"
     misc_feature    order(400899..400901,400956..400961,401013..401015,
                     401022..401024,401046..401051,401085..401087,
                     401100..401102)
                     /locus_tag="CLC_0410"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238225"
     gene            401133..402527
                     /locus_tag="CLC_0411"
                     /db_xref="GeneID:5401074"
                     /db_xref="Pathema:CLC_0411"
     CDS             401133..402527
                     /locus_tag="CLC_0411"
                     /EC_number="2.7.3.-"
                     /note="identified by match to protein family HMM PF00512;
                     match to protein family HMM PF00672; match to protein
                     family HMM PF02518"
                     /codon_start=1
                     /transl_table=11
                     /product="sensor histidine kinase"
                     /protein_id="YP_001386306.1"
                     /db_xref="GI:153937672"
                     /db_xref="GeneID:5401074"
                     /db_xref="Pathema:CLC_0411"
                     /translation="MSKISVKRRLMVNFILIIIISVFILEFLLILFTRHYYYNNLEDA
                     ISNQIKTSAEFYNKYFSNSPLEDNVLDNVDVFWRQTSAQVQIIDTKGKVLMDSIGVSN
                     KSQIKTSDIQKALKGEKGVWIGKVDYDTSGVMAVTYPLKSDNQIVGVLRFITSLRYVN
                     SDIARISLGFLLIGLVVILISGLVSLFLANSITEPIKELTYVANKMASGNFKIKSEKM
                     FDDEFGELSDTLNYMADEIVKKDQLKNEFISSVSHELRTPLTSIKGWAITLNSNEVDK
                     EILKDGLKIIEDESERLSGMVEELLDFSKFVSGKMKLNKEEISICEIIDTVRKQLEPY
                     AYRNRINFKATCINKLPNIYGDRNRIKQVLINLLDNAFKFTPEGGLVELNTKYEEEYI
                     TIVVKDTGVGISKEDLPRVKEKFYKGNSGKSKNGIGLSICDEIIKLHNGVLHIESEEN
                     KGTTISIKLPMIKL"
     misc_feature    401706..402515
                     /locus_tag="CLC_0411"
                     /note="Signal transduction histidine kinase [Signal
                     transduction mechanisms]; Region: BaeS; COG0642"
                     /db_xref="CDD:223715"
     misc_feature    401706..401849
                     /locus_tag="CLC_0411"
                     /note="Histidine kinase, Adenylyl cyclase,
                     Methyl-accepting protein, and Phosphatase (HAMP) domain.
                     HAMP is a signaling domain which occurs in a wide variety
                     of signaling proteins, many of which are bacterial. The
                     HAMP domain consists of two alpha helices...; Region:
                     HAMP; cd06225"
                     /db_xref="CDD:100122"
     misc_feature    order(401706..401711,401718..401723,401727..401732,
                     401739..401744,401748..401750,401796..401801,
                     401805..401810,401817..401822,401826..401831,
                     401838..401843)
                     /locus_tag="CLC_0411"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:100122"
     misc_feature    401853..402047
                     /locus_tag="CLC_0411"
                     /note="Histidine Kinase A (dimerization/phosphoacceptor)
                     domain; Histidine Kinase A dimers are formed through
                     parallel association of 2 domains creating 4-helix
                     bundles; usually these domains contain a conserved His
                     residue and are activated via...; Region: HisKA; cd00082"
                     /db_xref="CDD:119399"
     misc_feature    order(401871..401873,401883..401885,401895..401897,
                     401904..401906,401916..401918,401925..401927,
                     401976..401978,401988..401990,401997..401999,
                     402009..402011,402018..402020,402030..402032)
                     /locus_tag="CLC_0411"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:119399"
     misc_feature    401889..401891
                     /locus_tag="CLC_0411"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:119399"
     misc_feature    402210..402509
                     /locus_tag="CLC_0411"
                     /note="Histidine kinase-like ATPases; This family includes
                     several ATP-binding proteins for example: histidine
                     kinase, DNA gyrase B, topoisomerases, heat shock protein
                     HSP90, phytochrome-like ATPases and DNA mismatch repair
                     proteins; Region: HATPase_c; cd00075"
                     /db_xref="CDD:238030"
     misc_feature    order(402228..402230,402240..402242,402249..402251,
                     402318..402320,402324..402326,402330..402332,
                     402336..402341,402411..402419,402465..402467,
                     402471..402473,402486..402491,402495..402497)
                     /locus_tag="CLC_0411"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    402240..402242
                     /locus_tag="CLC_0411"
                     /note="Mg2+ binding site [ion binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    order(402330..402332,402336..402338,402414..402416)
                     /locus_tag="CLC_0411"
                     /note="G-X-G motif; other site"
                     /db_xref="CDD:238030"
     gene            402590..404080
                     /locus_tag="CLC_0412"
                     /db_xref="GeneID:5400075"
                     /db_xref="Pathema:CLC_0412"
     CDS             402590..404080
                     /locus_tag="CLC_0412"
                     /codon_start=1
                     /transl_table=11
                     /product="lipoprotein"
                     /protein_id="YP_001386307.1"
                     /db_xref="GI:153936706"
                     /db_xref="GeneID:5400075"
                     /db_xref="Pathema:CLC_0412"
                     /translation="MRKSKILLIFMIFIYSLTITACVNLDNKNNIVAPNNNSCPIEGT
                     WQFDFSNLDKDSKLRLRLKNKDVIINSKYIILGNEVCKSPDFKVKTVKTEEYFLYKLR
                     LNPNKLNLDKKEIEVISTSLDNNPFYDFIKIDEKKLLVYVDNQLLVLTKKSNSSSIEP
                     KHNIIEKNSQQDIVMPKRYTLLRTGVLIGLKSSEEDYVDGYKNEKKYRTIFISSRNRN
                     LKNVIETENLFVPRKDGFCEIGVNRINNLSNIQDNIFVNPLYNNYPIKNNFRLEQDIK
                     NKSIYRDILFVSNDYISIEYNDINKDKPIDLYKVKMLPIDNINAMAGVNIGDIIDKDS
                     EKILASSLESCIRSKDKDILNKLERSCRKDSFFLSRRNGHWILKGRLNGIDDKEEYID
                     FNISTEIPKKILNYDDLNLSWNSIKSKVPNALDAYTSPNKDLAIITTEKELYVYTIED
                     GKLSNKAIYEMELNKETVVMAEWATADYAKKWTDSILKNKNAHIIK"
     gene            404124..404690
                     /locus_tag="CLC_0413"
                     /db_xref="GeneID:5401673"
                     /db_xref="Pathema:CLC_0413"
     CDS             404124..404690
                     /locus_tag="CLC_0413"
                     /note="identified by match to protein family HMM PF06962"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386308.1"
                     /db_xref="GI:153936917"
                     /db_xref="GeneID:5401673"
                     /db_xref="Pathema:CLC_0413"
                     /translation="MSKEKFNNAVNIAKYICENTLKFGDIAVDCTLGKGHDTILLANL
                     VGNKGKVISFDIQKEAINKTREKLREFDYKNITLINDGHENLDKHIQEKVKLFIFNLG
                     YLPGKDHNITTKAETTLKALKKALKLLDDNGIVLLVIYYGHENGKEEKAALEKFTSEL
                     DQKVYNVMKNSFINQANNPPLLICIEKR"
     misc_feature    <404184..>404351
                     /locus_tag="CLC_0413"
                     /note="S-adenosylmethionine-dependent methyltransferases
                     (SAM or AdoMet-MTase), class I;  AdoMet-MTases are enzymes
                     that use S-adenosyl-L-methionine (SAM or AdoMet) as a
                     substrate for methyltransfer, creating the product
                     S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases;
                     cl17173"
                     /db_xref="CDD:247727"
     misc_feature    404271..404684
                     /locus_tag="CLC_0413"
                     /note="Putative rRNA methylase; Region: rRNA_methylase;
                     pfam06962"
                     /db_xref="CDD:191653"
     gene            404716..405390
                     /locus_tag="CLC_0414"
                     /db_xref="GeneID:5399114"
                     /db_xref="Pathema:CLC_0414"
     CDS             404716..405390
                     /locus_tag="CLC_0414"
                     /note="identified by match to protein family HMM PF09335"
                     /codon_start=1
                     /transl_table=11
                     /product="DedA family protein"
                     /protein_id="YP_001386309.1"
                     /db_xref="GI:153935942"
                     /db_xref="GeneID:5399114"
                     /db_xref="Pathema:CLC_0414"
                     /translation="MKNKKDLFKIIGLSLIIIIVAMFLLRHGHAIRRMNIKHTVRYIR
                     SCGKFSSICFLLIYALKPLVIIIPASMLSLVGGVLFGPVKGFILNMLGFFLSGSLAFW
                     LSRLLGKSFVDKILRGKAIELDNNIEKEGFKIIFLLRFPPIFPYDPISYASGLTKMKY
                     KHFVLGSLLGVIPETMCYSYMGKNVMNPLTSKFIVPVILVILTTIIGIYVYKKSKINV
                     VKDEKL"
     misc_feature    404836..405294
                     /locus_tag="CLC_0414"
                     /note="Uncharacterized conserved protein [Function
                     unknown]; Region: COG0398"
                     /db_xref="CDD:223475"
     misc_feature    404914..405261
                     /locus_tag="CLC_0414"
                     /note="SNARE associated Golgi protein; Region:
                     SNARE_assoc; pfam09335"
                     /db_xref="CDD:220186"
     gene            complement(405531..408209)
                     /locus_tag="CLC_0415"
                     /db_xref="GeneID:5398425"
                     /db_xref="Pathema:CLC_0415"
     CDS             complement(405531..408209)
                     /locus_tag="CLC_0415"
                     /note="identified by match to protein family HMM PF00563;
                     match to protein family HMM PF00672; match to protein
                     family HMM PF00990; match to protein family HMM PF05228;
                     match to protein family HMM TIGR00254"
                     /codon_start=1
                     /transl_table=11
                     /product="diguanylate cyclase"
                     /protein_id="YP_001386310.1"
                     /db_xref="GI:153934947"
                     /db_xref="GeneID:5398425"
                     /db_xref="Pathema:CLC_0415"
                     /translation="MKLYKKSLAIILLIFLVSIIITSILSKTYIMKKFNNIEIKYNVY
                     KTEHLLKLINKDIQNMYNLNKDYAMWDDTYKFINDKNDNYIQTILKGSSIFKKFNIDL
                     ILFVNKNNDVVFEQYYNKNKKLNKKDINYLSSIATSNIKNTHPIKGLTKFDDSLFLIT
                     SSPITDSLNSKTPNGAMIFIKFLPKENINKIYGNNTNFQIIDFKNLYPVIYKKNNIFM
                     IEHNDHLLESYGLIRDIFNNNTFMLKLNINRDIYFTAKENIKFFIFVIFILGIFMSIL
                     LIKILNELVLKKVHSIEKTLNYVAETADLSVRLDTTGNDEITSLNKNFNNMFDMLETS
                     KEKIIENHKKYNYLFSSVITNFSYNKIIKNKDSDIVDFKVVEINNYFSELLNTDKENI
                     IGENISSFIPSILNENPILIKSIKKISSVGGKETLEEIYIEELRKWFSAVVYSMEVDY
                     FALLLTDITENKKDKEKILGLAYYDSLTGLSNRKKIIETINKTINNYENEKFAVLFID
                     LDHFKSINDTLGHDVGDYVLEKVSARFKMLLSPKHKIGRLGGDEFIIVQNITSISDAE
                     KLACKICTTLNHSIKYKEDDLFIGASIGISIYPEDGKDTSTLMKNADAAMYAAKKNGG
                     YKYEVYSRSMNERALDDLILENRLRRALEKNELLVYFQPIYHLKTSKIIAMESLVRWK
                     FDNKIISPNQFIPLAKNIGEIANIDNWVLNKACSQCNLWQKQNNKPLYVSVNISFKQM
                     KDKNFVDNVLNILRTTKLKPSYLCLEITEDEAMEDVDLSIKTLEALKRHGIKISLDDF
                     GTGYSSLSYVTKLPIDNIKIDKSIIKNIHKDNKSLQIVKSIILMSKSLDINIIAEGVE
                     TIEQLEILQELGCDFIQGFYISEPLPIKTFQSKFIR"
     misc_feature    complement(407637..408062)
                     /locus_tag="CLC_0415"
                     /note="CHASE4 domain; Region: CHASE4; pfam05228"
                     /db_xref="CDD:218512"
     misc_feature    complement(407211..407357)
                     /locus_tag="CLC_0415"
                     /note="Histidine kinase, Adenylyl cyclase,
                     Methyl-accepting protein, and Phosphatase (HAMP) domain.
                     HAMP is a signaling domain which occurs in a wide variety
                     of signaling proteins, many of which are bacterial. The
                     HAMP domain consists of two alpha helices...; Region:
                     HAMP; cd06225"
                     /db_xref="CDD:100122"
     misc_feature    complement(order(407217..407222,407229..407234,
                     407238..407243,407250..407255,407259..407264,
                     407313..407315,407319..407324,407331..407336,
                     407340..407345,407352..407357))
                     /locus_tag="CLC_0415"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:100122"
     misc_feature    complement(406320..406850)
                     /locus_tag="CLC_0415"
                     /note="c-di-GMP synthetase (diguanylate cyclase, GGDEF
                     domain) [Signal    transduction mechanisms]; Region:
                     COG2199"
                     /db_xref="CDD:225109"
     misc_feature    complement(406338..406793)
                     /locus_tag="CLC_0415"
                     /note="Diguanylate-cyclase (DGC) or GGDEF domain; Region:
                     GGDEF; cd01949"
                     /db_xref="CDD:143635"
     misc_feature    complement(order(406557..406559,406686..406688))
                     /locus_tag="CLC_0415"
                     /note="metal binding site [ion binding]; metal-binding
                     site"
                     /db_xref="CDD:143635"
     misc_feature    complement(order(406554..406565,406569..406571,
                     406635..406637,406647..406649,406659..406664,
                     406671..406673))
                     /locus_tag="CLC_0415"
                     /note="active site"
                     /db_xref="CDD:143635"
     misc_feature    complement(order(406497..406499,406581..406583))
                     /locus_tag="CLC_0415"
                     /note="I-site; other site"
                     /db_xref="CDD:143635"
     misc_feature    complement(405561..406274)
                     /locus_tag="CLC_0415"
                     /note="EAL domain. This domain is found in diverse
                     bacterial signaling proteins. It is called EAL after its
                     conserved residues and is also known as domain of unknown
                     function 2 (DUF2).  The EAL domain has been shown to
                     stimulate degradation of a second...; Region: EAL;
                     cd01948"
                     /db_xref="CDD:238923"
     gene            complement(408409..409596)
                     /locus_tag="CLC_0416"
                     /db_xref="GeneID:5399924"
                     /db_xref="Pathema:CLC_0416"
     CDS             complement(408409..409596)
                     /locus_tag="CLC_0416"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386311.1"
                     /db_xref="GI:153937425"
                     /db_xref="GeneID:5399924"
                     /db_xref="Pathema:CLC_0416"
                     /translation="MNKRKKLILIITLCISITYLFLYNNNKTYVYTSLQEENSLDKDS
                     VKNSLEEIYIKRCEAFTSLDLKSLNDYFNTSHKYGEWALAHEIKRIKYLNDWSYNRGI
                     KFTNVASSLKYRKISPTKRGVRVSLDEIYKFDYEYKSDETPTKNSFGVSIQHTVDLIK
                     KDDKWIIFTDWYTDCFEDALKSYSADTDSLDKQTSPPKYNINSCSRNHEPNYEGKYNR
                     IKAVEYADKYCGIPWASGNDLRHNKKYKNFTGAGGDCTNYVSQVLGDKEAGSLPFDGA
                     WYCRYHKYGGGEGSKAWVNADALRNYLIYSGKGNLIKKGSFEDLIKPTDNHACGVIEK
                     LELGDMICYALGSNIDHFAVVTGWDSHGYPLVNSHTTNRYRVPWDLGWGDKNIFFHLI
                     HIK"
     misc_feature    complement(408421..408954)
                     /locus_tag="CLC_0416"
                     /note="Putative amidase domain; Region: Amidase_6;
                     pfam12671"
                     /db_xref="CDD:221700"
     gene            409849..411189
                     /locus_tag="CLC_0417"
                     /db_xref="GeneID:5401736"
                     /db_xref="Pathema:CLC_0417"
     CDS             409849..411189
                     /locus_tag="CLC_0417"
                     /note="identified by match to protein family HMM PF01554;
                     match to protein family HMM TIGR00797"
                     /codon_start=1
                     /transl_table=11
                     /product="MATE efflux family protein"
                     /protein_id="YP_001386312.1"
                     /db_xref="GI:153935621"
                     /db_xref="GeneID:5401736"
                     /db_xref="Pathema:CLC_0417"
                     /translation="MTKRYPMKEILDTSIPIIAEMTLYNLMIVFDMMMIGNYGGNKCL
                     TAVGLSNGVIFTLCDVFISVGLAVSVTSLIARSIGSRHYKNAQQYSICGLFLGVIISF
                     LISYFMFYKSEKILYIAGARGDILKIANVFNKTMAISIFFKMNTEIINSILRGYKNTK
                     IPFFTAVIISSCKIILDFIFIFGIGKNGLGVFGAALASILSQIVGFTFSFIYMLDKLK
                     SHGNINLFKLFKIDKIKDILNMYIPASLEEATYSVSRLLCAFMIIKIGSISFSANEIA
                     NTIETVSIIPSAALGVSATTLVGMKIGEKDYRGAKEYANKSVWFAVSISLIFSLLFIF
                     MPNLLVGCFVGNKEKNVVKLATVCLLVGAIEQPFIAASTVVEDILKGMGDAKTPFIVT
                     LISSWCIRVPLFYYYIYKLKYSVVCVWWITAFQWFIDFLLMKIILKKKFNKFKL"
     misc_feature    409864..411126
                     /locus_tag="CLC_0417"
                     /note="Na+-driven multidrug efflux pump [Defense
                     mechanisms]; Region: NorM; COG0534"
                     /db_xref="CDD:223608"
     misc_feature    409870..411126
                     /locus_tag="CLC_0417"
                     /note="Subfamily of the multidrug and toxic compound
                     extrusion (MATE)-like proteins similar to Thermotoga
                     marina NorM; Region: MATE_NorM_like; cd13137"
                     /db_xref="CDD:240542"
     gene            411381..411947
                     /locus_tag="CLC_0418"
                     /db_xref="GeneID:5399171"
                     /db_xref="Pathema:CLC_0418"
     CDS             411381..411947
                     /locus_tag="CLC_0418"
                     /note="identified by match to protein family HMM PF01966"
                     /codon_start=1
                     /transl_table=11
                     /product="HD domain-containing protein"
                     /protein_id="YP_001386313.1"
                     /db_xref="GI:153934899"
                     /db_xref="GeneID:5399171"
                     /db_xref="Pathema:CLC_0418"
                     /translation="MFSREKAEELLLNNLKSEHLIKHSYAVEAVMRGLAKKLDPENID
                     KWGITGLLHDLDADIVDYVQNPHLHGPKTVEILKAEGFGDEDMYNAICAHNQGSGTEI
                     KSKMDQAIYAADPITGFITAITLVYPDKKISSVKVKSITKRMKEKRFAAGANREAMKS
                     IEKLGIEFPQFAELSLNSMEEISQVLGL"
     misc_feature    411381..411944
                     /locus_tag="CLC_0418"
                     /note="Metal dependent phosphohydrolases with conserved
                     'HD' motif; Region: HDc; cl17215"
                     /db_xref="CDD:247769"
     gene            412259..413527
                     /locus_tag="CLC_0419"
                     /db_xref="GeneID:5399267"
                     /db_xref="Pathema:CLC_0419"
     CDS             412259..413527
                     /locus_tag="CLC_0419"
                     /note="identified by match to protein family HMM PF00999"
                     /codon_start=1
                     /transl_table=11
                     /product="monovalent cation:proton antiporter-2 (CPA2)
                     family protein"
                     /protein_id="YP_001386314.1"
                     /db_xref="GI:153937056"
                     /db_xref="GeneID:5399267"
                     /db_xref="Pathema:CLC_0419"
                     /translation="METNVILSANNILKLIALVILAGVVFGKISRKVNLPDVVLFILA
                     GVILGPEVLNLINIDSYPVGNQLILTFGAAYILYDGGREIDLKVFNEVKISVLLLSTL
                     GVLISTGITGFFVYKIFHIDFIYALLLGAIISSTDPSVLVPLFKNMNVSNKLKQTIIS
                     ESAFNDAAAAIVTFAILGVIAGGEFSLGKSIFELLKSSLGGILIGGIFGYISTKLIAG
                     EKYAFLKEFPSEVSIVAVIGTYLIADKLGVSGFMAVFIIGMVCGNKKRINCCIPDEYN
                     QTHLRFKEVLTIILRMMIFVLLGSHIDFGVLSKYFTKDLMVVALLIFVSRPVSAFLSV
                     IFDRKAKWNIKEIIYLMWVRETGVIPAALVGMLLTMHIKNSDIIASVTFTTIIITLTF
                     QASTSKSLAKLLKLDLDEGKKEIAVDSIKI"
     misc_feature    412289..>412834
                     /locus_tag="CLC_0419"
                     /note="Kef-type K+ transport systems, membrane components
                     [Inorganic ion transport and metabolism]; Region: KefB;
                     COG0475"
                     /db_xref="CDD:223551"
     misc_feature    412304..413401
                     /locus_tag="CLC_0419"
                     /note="Sodium/hydrogen exchanger family; Region:
                     Na_H_Exchanger; pfam00999"
                     /db_xref="CDD:216235"
     gene            complement(413662..414984)
                     /locus_tag="CLC_0420"
                     /db_xref="GeneID:5400928"
                     /db_xref="Pathema:CLC_0420"
     CDS             complement(413662..414984)
                     /locus_tag="CLC_0420"
                     /note="identified by match to protein family HMM PF00266"
                     /codon_start=1
                     /transl_table=11
                     /product="class V aminotransferase"
                     /protein_id="YP_001386315.1"
                     /db_xref="GI:153936339"
                     /db_xref="GeneID:5400928"
                     /db_xref="Pathema:CLC_0420"
                     /translation="MYSNKRSPYRYLVVGSDTKVPLYNGQLTPCINFDNAATTPPLAS
                     VMNAIVNFSPWYSSIHRGTGYKSQLSSKIYEDSRKTVGKFIGADLDKDVIIYVKNTTE
                     AINKLSYRLCSCDDDSIILTTSMEHHSNDLPWRDKYNVDYIEVDDCGRLVMEDLRSKL
                     IRYGDKVKLVTIAGASNVTGYINPIYDIAKLVHEFGCKILVDGAQLVPHCKLSMKPHD
                     SLEHIDYLAFSAHKMYAPFGIGVLIGPKETFERGDPDYKGGGTVNVVTKDYVLWTDPP
                     EKDEAGTPNVMGVIALAKAIDTMTGIGMKNIEIYEQDIFEYAFRKIAQIPDIKIYSCK
                     NLDYPRVAIIPFNISGMHHSITAEILSKEFGIAVRNGCFCAQPYVQKILNIPKEEIGS
                     YANEPMNKRPGMLRLSFGMYNDIYEIDFLVMALNKIVQNKNKYLEKYG"
     misc_feature    complement(413692..414921)
                     /locus_tag="CLC_0420"
                     /note="Selenocysteine lyase/Cysteine desulfurase
                     [Posttranslational modification, protein turnover,
                     chaperones]; Region: csdA; COG0520"
                     /db_xref="CDD:223594"
     misc_feature    complement(413701..414900)
                     /locus_tag="CLC_0420"
                     /note="Aspartate aminotransferase (AAT) superfamily (fold
                     type I) of pyridoxal phosphate (PLP)-dependent enzymes.
                     PLP combines with an alpha-amino acid to form a compound
                     called a Schiff base or aldimine intermediate, which
                     depending on the reaction, is the...; Region: AAT_I;
                     cl00321"
                     /db_xref="CDD:241782"
     misc_feature    complement(order(414289..414291,414298..414300,
                     414370..414372,414379..414381,414463..414465,
                     414673..414675,414682..414687))
                     /locus_tag="CLC_0420"
                     /note="pyridoxal 5'-phosphate binding pocket [chemical
                     binding]; other site"
                     /db_xref="CDD:99742"
     misc_feature    complement(414289..414291)
                     /locus_tag="CLC_0420"
                     /note="catalytic residue [active]"
                     /db_xref="CDD:99742"
     gene            415371..416381
                     /locus_tag="CLC_0421"
                     /db_xref="GeneID:5398572"
                     /db_xref="Pathema:CLC_0421"
     CDS             415371..416381
                     /locus_tag="CLC_0421"
                     /note="identified by match to protein family HMM PF03601"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386316.1"
                     /db_xref="GI:153936467"
                     /db_xref="GeneID:5398572"
                     /db_xref="Pathema:CLC_0421"
                     /translation="MERLKTILPGILLSFFIAILATWLGNLLPVIGGAVFGIIIGIII
                     NNIIGKPKNTIEGVAFTSKKVLQWAIIVLGAGLSLSQVRKTGLESLEVTIFTIATAFI
                     TAYVVGKFFKIPDKLKTLIGVGTAICGGSAIAAISPIIEADEVEIAYSISTIFLFNII
                     AVLIFPPLGHLLGFSDKAFGLWAGTAINDTSSVVAAGYAFSNKAGEYATIVKLTRATL
                     IIPISLIFAFITAYKKKKEAEMGTGEVNYSFKKIFPWFILWFLVASLLNTMGLFKGNT
                     IHYINELGKFLIVMALSAIGLSSNFKQMTKAGFKPILLGVIVWFNVAVVSIIIQFITG
                     QI"
     misc_feature    415380..416372
                     /locus_tag="CLC_0421"
                     /note="Predicted membrane protein [Function unknown];
                     Region: COG2855"
                     /db_xref="CDD:225411"
     gene            416512..417186
                     /locus_tag="CLC_0422"
                     /db_xref="GeneID:5401401"
                     /db_xref="Pathema:CLC_0422"
     CDS             416512..417186
                     /locus_tag="CLC_0422"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386317.1"
                     /db_xref="GI:153936463"
                     /db_xref="GeneID:5401401"
                     /db_xref="Pathema:CLC_0422"
                     /translation="MIHKIKENIVPLSLMLIIPVVNVFYAILNNSNRGVYTLVTDLDK
                     SMPFIPAFSVPYMVWYPFIIISLIYMCFKNRKLYYKSLSSIIISLITSYIIFFFFQTT
                     VPRPKVIGNDIFSDIVKFIYSTDIAYNCFPSIHVITTYIIMRYMLNHEMKNSKIINIT
                     VIILGILIILSTQFIKQHVLLDAIFAIILGEGIYNMINYYGLEMIKKCQQKKSLLLMM
                     KKKSEI"
     misc_feature    416614..417111
                     /locus_tag="CLC_0422"
                     /note="PAP2_like proteins, a super-family of histidine
                     phosphatases and vanadium haloperoxidases, includes type 2
                     phosphatidic acid phosphatase or lipid phosphate
                     phosphatase (LPP), Glucose-6-phosphatase,
                     Phosphatidylglycerophosphatase B and bacterial acid...;
                     Region: PAP2_like; cl00474"
                     /db_xref="CDD:241889"
     misc_feature    order(416794..416796,416818..416820,416908..416916,
                     417025..417027,417043..417045,417055..417057)
                     /locus_tag="CLC_0422"
                     /note="active site"
                     /db_xref="CDD:238813"
     gene            417132..417830
                     /locus_tag="CLC_0423"
                     /db_xref="GeneID:5398928"
                     /db_xref="Pathema:CLC_0423"
     CDS             417132..417830
                     /locus_tag="CLC_0423"
                     /note="identified by match to protein family HMM PF00486"
                     /codon_start=1
                     /transl_table=11
                     /product="DNA-binding response regulator"
                     /protein_id="YP_001386318.1"
                     /db_xref="GI:153936832"
                     /db_xref="GeneID:5398928"
                     /db_xref="Pathema:CLC_0423"
                     /translation="MSAEKILIVDDEKEIRDLIDIYLTNEGYITLKSSNGIEALELLK
                     TNNVHLIILDIMMPKMDGIEACMKIREEKSMPIIMLSAKSEDMDKIIGLTTGADDYIT
                     KPFNPLELLARVKSQLRRYIKLNNSNGNENEDIVTIEDITINVATHEVKIGDQPVRLT
                     PREFDILELLARNRGVVFSIEKIYELVWKEEFLDSNNTVMVHIRKLREKIEQNPRNPR
                     YIKTVWGVGYKVEK"
     misc_feature    417144..417824
                     /locus_tag="CLC_0423"
                     /note="Response regulators consisting of a CheY-like
                     receiver domain and a winged-helix DNA-binding domain
                     [Signal transduction mechanisms / Transcription]; Region:
                     OmpR; COG0745"
                     /db_xref="CDD:223816"
     misc_feature    417150..417485
                     /locus_tag="CLC_0423"
                     /note="Signal receiver domain; originally thought to be
                     unique to bacteria (CheY, OmpR, NtrC, and PhoB), now
                     recently identified in eukaroytes ETR1 Arabidopsis
                     thaliana; this domain receives the signal from the sensor
                     partner in a two-component systems; Region: REC; cd00156"
                     /db_xref="CDD:238088"
     misc_feature    order(417159..417164,417291..417293,417315..417317,
                     417372..417374,417429..417431,417438..417443)
                     /locus_tag="CLC_0423"
                     /note="active site"
                     /db_xref="CDD:238088"
     misc_feature    417291..417293
                     /locus_tag="CLC_0423"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:238088"
     misc_feature    order(417300..417305,417309..417317)
                     /locus_tag="CLC_0423"
                     /note="intermolecular recognition site; other site"
                     /db_xref="CDD:238088"
     misc_feature    417438..417446
                     /locus_tag="CLC_0423"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238088"
     misc_feature    417537..417818
                     /locus_tag="CLC_0423"
                     /note="Effector domain of response regulator. Bacteria and
                     certain eukaryotes like protozoa and higher plants use
                     two-component signal transduction systems to detect and
                     respond to changes in the environment. The system consists
                     of a sensor histidine kinase and...; Region: trans_reg_C;
                     cd00383"
                     /db_xref="CDD:238225"
     misc_feature    order(417609..417611,417666..417671,417723..417725,
                     417732..417734,417756..417761,417795..417797,
                     417810..417812)
                     /locus_tag="CLC_0423"
                     /note="DNA binding site [nucleotide binding]"
                     /db_xref="CDD:238225"
     gene            417820..419334
                     /locus_tag="CLC_0424"
                     /db_xref="GeneID:5401180"
                     /db_xref="Pathema:CLC_0424"
     CDS             417820..419334
                     /locus_tag="CLC_0424"
                     /EC_number="2.7.3.-"
                     /note="identified by match to protein family HMM PF00512;
                     match to protein family HMM PF00672; match to protein
                     family HMM PF02518"
                     /codon_start=1
                     /transl_table=11
                     /product="sensor histidine kinase"
                     /protein_id="YP_001386319.1"
                     /db_xref="GI:153934845"
                     /db_xref="GeneID:5401180"
                     /db_xref="Pathema:CLC_0424"
                     /translation="MKNRIKRLFNKIMKPFKYIYKLISYKVKKSLRLELIFTFGLCFL
                     MAIMTFIITNSYLTKASKYSEINYEKGINEIYNYSLSISNEINSEKLKIEDKDTIQEL
                     IDRHWSMDKNNKIFIANTDGKILFKVENVEVEKVDIFEIIKNNIQLQNIKSYEYDYDV
                     GRKEFVSINPLIFENGKAYVIVQGIPRAETIYYTKDKSVSAFLLAVIVFIFGFLFITK
                     RKMNYIEEISKGLLQISKGNLDYRVKRVGNDELALLADNINYMAKELTDKIEKERKIE
                     KAKNDLITNVSHDLRTPLTSIMGYLGLIKEKKFKSEKELMEYASVAYTKSEKLKNLIQ
                     DLFSYTKYSNDRVELNKQKIILAELLDQLIEELVPICEENKVSINKYAWDSEIVSEID
                     ADKMVRVFENLIMNAIRYSIKPGEIKINLYKERVFSMVSISNKSEEISKDNLRKLFDR
                     FYRLDKSRTASTGGSGLGLAIAKSIVELHKGSIWAEYQKGYITFYIKLIMAEDE"
     misc_feature    418420..419331
                     /locus_tag="CLC_0424"
                     /note="Signal transduction histidine kinase [Signal
                     transduction mechanisms]; Region: BaeS; COG0642"
                     /db_xref="CDD:223715"
     misc_feature    418489..418620
                     /locus_tag="CLC_0424"
                     /note="Histidine kinase, Adenylyl cyclase,
                     Methyl-accepting protein, and Phosphatase (HAMP) domain.
                     HAMP is a signaling domain which occurs in a wide variety
                     of signaling proteins, many of which are bacterial. The
                     HAMP domain consists of two alpha helices...; Region:
                     HAMP; cd06225"
                     /db_xref="CDD:100122"
     misc_feature    order(418489..418494,418498..418503,418510..418515,
                     418519..418521,418567..418572,418576..418581,
                     418588..418593,418597..418602,418609..418614)
                     /locus_tag="CLC_0424"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:100122"
     misc_feature    418657..418842
                     /locus_tag="CLC_0424"
                     /note="Histidine Kinase A (dimerization/phosphoacceptor)
                     domain; Histidine Kinase A dimers are formed through
                     parallel association of 2 domains creating 4-helix
                     bundles; usually these domains contain a conserved His
                     residue and are activated via...; Region: HisKA; cd00082"
                     /db_xref="CDD:119399"
     misc_feature    order(418663..418665,418675..418677,418687..418689,
                     418696..418698,418708..418710,418717..418719,
                     418771..418773,418783..418785,418792..418794,
                     418804..418806,418813..418815,418825..418827)
                     /locus_tag="CLC_0424"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:119399"
     misc_feature    418681..418683
                     /locus_tag="CLC_0424"
                     /note="phosphorylation site [posttranslational
                     modification]"
                     /db_xref="CDD:119399"
     misc_feature    419011..419313
                     /locus_tag="CLC_0424"
                     /note="Histidine kinase-like ATPases; This family includes
                     several ATP-binding proteins for example: histidine
                     kinase, DNA gyrase B, topoisomerases, heat shock protein
                     HSP90, phytochrome-like ATPases and DNA mismatch repair
                     proteins; Region: HATPase_c; cd00075"
                     /db_xref="CDD:238030"
     misc_feature    order(419023..419025,419035..419037,419044..419046,
                     419113..419115,419119..419121,419125..419127,
                     419131..419136,419215..419226,419272..419274,
                     419278..419280,419290..419295,419299..419301)
                     /locus_tag="CLC_0424"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    419035..419037
                     /locus_tag="CLC_0424"
                     /note="Mg2+ binding site [ion binding]; other site"
                     /db_xref="CDD:238030"
     misc_feature    order(419125..419127,419131..419133,419215..419217,
                     419221..419223)
                     /locus_tag="CLC_0424"
                     /note="G-X-G motif; other site"
                     /db_xref="CDD:238030"
     gene            419442..420857
                     /locus_tag="CLC_0425"
                     /db_xref="GeneID:5399630"
                     /db_xref="Pathema:CLC_0425"
     CDS             419442..420857
                     /locus_tag="CLC_0425"
                     /note="identified by match to protein family HMM PF00474"
                     /codon_start=1
                     /transl_table=11
                     /product="sodium:solute symporter family protein"
                     /protein_id="YP_001386320.1"
                     /db_xref="GI:153935356"
                     /db_xref="GeneID:5399630"
                     /db_xref="Pathema:CLC_0425"
                     /translation="MKGYLIFIIIYAIILILAGFFVKKYVKSAADFFVAGRKLNSKLL
                     CTTLIAANIGAGSTVGITGIAYKYGVSSYWWIFMSAIGTAVLAFLVGPKIWEKSMKYN
                     LYTLGDYLDIRYSKYFKGAISIMMTIGTLALFAGQLMGIAWILDVTSGIDKNIGILIG
                     AVVVVLYFSSGGLLSSAIVNVLELVIIILGFIIAVPFCIKSVNGFSGLHTAILNNLPA
                     NEGVNYFSLKGIGISTIVGWFLMLTPSFFISPGLIGKVYGAKDMKTIKKGAGICAVVQ
                     GLFAFLPTILGMCAFAVFPNLNQQELALPMVMKNLMPFSVSALALAAIFAAEVSTADA
                     VLYMLTTTFTEDIYKTFINPKIEDKKLLKAGRIVTIVGGILGVAMAFILPNIITALSI
                     FYTLMSVSLTVPLLFGLFSEKPNTKIAFTSSIIGIIITLYLQFQNNDKGIWILNAQST
                     GILCSLIAMIIFLALKKKTTT"
     misc_feature    419508..420824
                     /locus_tag="CLC_0425"
                     /note="Solute carrier 5 family, sodium/glucose
                     transporters and related proteins; solute-binding domain;
                     Region: SLC5sbd; cd10322"
                     /db_xref="CDD:212032"
     misc_feature    order(419589..419591,419598..419600,420420..420422,
                     420429..420434)
                     /locus_tag="CLC_0425"
                     /note="Na binding site [ion binding]; other site"
                     /db_xref="CDD:212032"
     gene            422087..423406
                     /locus_tag="CLC_0426"
                     /db_xref="GeneID:5399912"
                     /db_xref="Pathema:CLC_0426"
     CDS             422087..423406
                     /locus_tag="CLC_0426"
                     /note="identified by match to protein family HMM PF00037;
                     match to protein family HMM PF01512; match to protein
                     family HMM TIGR01945"
                     /codon_start=1
                     /transl_table=11
                     /product="RnfABCDGE type electron transport complex
                     subunit C"
                     /protein_id="YP_001386321.1"
                     /db_xref="GI:153936091"
                     /db_xref="GeneID:5399912"
                     /db_xref="Pathema:CLC_0426"
                     /translation="MELLTFKKGVHPPHGKYLTEKKPIEEYLPKGDLVFPMSQHIGAP
                     CNPVVKKGDRVLVGQVIGEATGFVSAPIHSSVSGTVKNLAPVLTAAGTKVMAVIVEND
                     GQYEEIEMPKPKDYNEMTKEEIIKLIQQAGIVGMGGACFPTHVKLSPPPDKKIDSIIV
                     NAAECEPYLTCDHRLMLEESDKIVEGLKIILKIFPEAKGYIGIENNKPDAIEAMKKAS
                     EGIANIEVKALKTKYPQGAEKQLIYAIKGREVQSGKLPADAGCVVQNTATVREIYNAV
                     VLGRPLIERIITVTGEAVKEPKNIRMKLGTNLRELVEFCGGYKEDPVKVISGGPMMGM
                     TIPTLDIPTVKGSSGLLSLAAAQAVLPQASSCIRCGRCVEACPMNLIPSTLDSLSNRG
                     ELASFEELHGIDCIECGCCTFVCPAKRHLIQSIRTAKRTVIASKRKK"
     misc_feature    422093..423394
                     /locus_tag="CLC_0426"
                     /note="electron transport complex, RnfABCDGE type, C
                     subunit; Region: rnfC; TIGR01945"
                     /db_xref="CDD:233649"
     misc_feature    422165..>422416
                     /locus_tag="CLC_0426"
                     /note="RecA-like NTPases. This family includes the NTP
                     binding domain of F1 and V1 H+ATPases, DnaB and related
                     helicases as well as bacterial RecA and related eukaryotic
                     and archaeal recombinases. This group also includes
                     bacterial conjugation proteins and...; Region:
                     RecA-like_NTPases; cl17233"
                     /db_xref="CDD:247787"
     misc_feature    422942..423088
                     /locus_tag="CLC_0426"
                     /note="SLBB domain; Region: SLBB; pfam10531"
                     /db_xref="CDD:220798"
     misc_feature    <423182..>423403
                     /locus_tag="CLC_0426"
                     /note="The HCP family of iron-sulfur proteins includes
                     hybrid cluster protein (HCP), acetyl-CoA synthase (ACS),
                     and carbon monoxide dehydrogenase (CODH), all of which
                     contain [Fe4-S4] metal clusters at their active sites.
                     These proteins have a conserved...; Region: HCP_like;
                     cl14655"
                     /db_xref="CDD:246686"
     gene            423429..424361
                     /locus_tag="CLC_0427"
                     /db_xref="GeneID:5400185"
                     /db_xref="Pathema:CLC_0427"
     CDS             423429..424361
                     /locus_tag="CLC_0427"
                     /note="identified by match to protein family HMM PF03116;
                     match to protein family HMM TIGR01946"
                     /codon_start=1
                     /transl_table=11
                     /product="RnfABCDGE type electron transport complex
                     subunit D"
                     /protein_id="YP_001386322.1"
                     /db_xref="GI:153937347"
                     /db_xref="GeneID:5400185"
                     /db_xref="Pathema:CLC_0427"
                     /translation="MSESMYTLSSSPHIRSKDSVQSIMRDVVIALLPAAIAGIYFFKL
                     KALLVILTAVISCVAAEYIWEKATGRDISIGDLSAVVTGMLLAFNVPPTLPLWMVVIG
                     SFFTIIVVKQFFGGIGQNIVNPALAGRAFLLASWPVAMTTWTVDGVTTATPLAILKGA
                     PGELPNLASAFVGHIGGCIGETSALALLIGFAYLLYRRIITWHIPVTYVGTVFVLTTI
                     IGRHGAMSGNAIYEIFVGGLMLGAIFMATDYTTSPMTKKGQVIFAIGCGVITTVIRIF
                     GGYPEGVSYSILLMNLVVPLIDKFVAPRVFGGVK"
     misc_feature    423441..424355
                     /locus_tag="CLC_0427"
                     /note="NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE;
                     pfam03116"
                     /db_xref="CDD:217374"
     gene            424361..425032
                     /locus_tag="CLC_0428"
                     /db_xref="GeneID:5399209"
                     /db_xref="Pathema:CLC_0428"
     CDS             424361..425032
                     /locus_tag="CLC_0428"
                     /note="identified by match to protein family HMM PF04205;
                     match to protein family HMM TIGR01947"
                     /codon_start=1
                     /transl_table=11
                     /product="RnfABCDGE type electron transport complex
                     subunit G"
                     /protein_id="YP_001386323.1"
                     /db_xref="GI:153937850"
                     /db_xref="GeneID:5399209"
                     /db_xref="Pathema:CLC_0428"
                     /translation="MEKNETLKLGLKLFIITAIAGLILGGAFIITKKPIADQIEKTNT
                     EAMKEILPKADKFEKMEGKAKDTVTEVNEGKKGSETAGYAIKVLTKGYGGQIEMMVGV
                     SKEGKVEGIKILSHSETPGLGANAPQPKFSGQFKGKSTEKDLEVVKTAPASDNQIEAM
                     TGATITSKAVTQGVNDAVKFYKNELLKTPSESKEVDGKSGATTSFNTEDTKLNKYVVN
                     YEKMN"
     misc_feature    424454..424909
                     /locus_tag="CLC_0428"
                     /note="FMN-binding domain; Region: FMN_bind; cl01081"
                     /db_xref="CDD:242292"
     gene            425043..425645
                     /locus_tag="CLC_0429"
                     /db_xref="GeneID:5399444"
                     /db_xref="Pathema:CLC_0429"
     CDS             425043..425645
                     /locus_tag="CLC_0429"
                     /note="in Excherichia coli RsxABCDEG reduces SoxR which
                     turns off induction of SoxS transcription factor in the
                     absence of oxidizing agents; similar to the rnfABCDGE
                     operon in Rhodobacter capsulatus involved in transferring
                     electrons to nitrogenase"
                     /codon_start=1
                     /transl_table=11
                     /product="electron transport complex protein RsxE"
                     /protein_id="YP_001386324.1"
                     /db_xref="GI:153934982"
                     /db_xref="GeneID:5399444"
                     /db_xref="Pathema:CLC_0429"
                     /translation="MMSVLGERLKNGIIDENVTFVQVLAMCPTLAVTSSAENGIGMGI
                     ASTVVLMGSNLVISLLRKVIPDKIRIPAFIVVIAGFVTLLQFLMQGFVPDLYTKLGIF
                     IPLIVVNCVILGRAEAYASKYGPVSSIFDGLGQGLGFTLSLGVIGMIRELLGAGQLFG
                     HQIMPSSFQPALIMILAPGAFFTLGILMAIINNMKLKKAK"
     misc_feature    425046..425642
                     /locus_tag="CLC_0429"
                     /note="electron transport complex RsxE subunit;
                     Provisional; Region: PRK12405"
                     /db_xref="CDD:237091"
     gene            425696..426274
                     /locus_tag="CLC_0430"
                     /db_xref="GeneID:5398795"
                     /db_xref="Pathema:CLC_0430"
     CDS             425696..426274
                     /locus_tag="CLC_0430"
                     /note="identified by match to protein family HMM PF02508;
                     match to protein family HMM TIGR01943"
                     /codon_start=1
                     /transl_table=11
                     /product="RnfABCDGE type electron transport complex
                     subunit A"
                     /protein_id="YP_001386325.1"
                     /db_xref="GI:153935903"
                     /db_xref="GeneID:5398795"
                     /db_xref="Pathema:CLC_0430"
                     /translation="MKIFALIISALFVNNFVLARFLGICSFLGVSKKVETATGMGLAV
                     TFVMALASLISYIVYNAILVPLNITYLYTIAFILVIAALVQFVEMVIKKKSPGLYKAL
                     GIFLPLITTNCAILGAVIINMNDKLNLIESLIFGTFSGVGYMLAIVLLAGLRERMEAC
                     DKMPKAMQGLPISLITAGLMAIAFLGFQGLLH"
     misc_feature    425696..426265
                     /locus_tag="CLC_0430"
                     /note="electron transport complex, RnfABCDGE type, A
                     subunit; Region: rnfA; TIGR01943"
                     /db_xref="CDD:130998"
     gene            426288..427121
                     /locus_tag="CLC_0431"
                     /db_xref="GeneID:5399566"
                     /db_xref="Pathema:CLC_0431"
     CDS             426288..427121
                     /locus_tag="CLC_0431"
                     /note="involved in the electron transport chain; in
                     Methanosarcina acetivorans this protein is part of a
                     cluster involved in electron transfer during growth on
                     acetate"
                     /codon_start=1
                     /transl_table=11
                     /product="ferredoxin"
                     /protein_id="YP_001386326.1"
                     /db_xref="GI:153936450"
                     /db_xref="GeneID:5399566"
                     /db_xref="Pathema:CLC_0431"
                     /translation="MNELLFPILSLGALGLVFGVLLGYASKKFAVEVDPKVPLIRDSL
                     PGANCGGCGYAGCDAYAQAVAEGAAPANACTVGGASVAEKVAEIMGVSIDESEPLKAY
                     VKCNGTCDKAKQRGEYYGTMDCQQASVVPGGASKSCQAGCLGLGSCVKACAFDAIHVT
                     EGGTAEVDPEKCVGCGACVKACPRAVIDLKPLSAVIRVACNSKDTLKAVKDVCQVGCM
                     TCRLCEKTCPVKAITMENNLPVVDKEKCVKCMACVKKCPTNALIAYGKDIVVKEEKPA
                     N"
     misc_feature    426288..427118
                     /locus_tag="CLC_0431"
                     /note="ferredoxin; Validated; Region: PRK07118"
                     /db_xref="CDD:235941"
     misc_feature    426618..>426752
                     /locus_tag="CLC_0431"
                     /note="CheD chemotactic sensory transduction; Region:
                     CheD; cl00810"
                     /db_xref="CDD:242110"
     misc_feature    <426795..426992
                     /locus_tag="CLC_0431"
                     /note="RPB11 and RPB3 subunits of RNA polymerase; Region:
                     RNAP_RPB11_RPB3; cl11409"
                     /db_xref="CDD:245605"
     gene            427501..428589
                     /locus_tag="CLC_0432"
                     /db_xref="GeneID:5398372"
                     /db_xref="Pathema:CLC_0432"
     CDS             427501..428589
                     /locus_tag="CLC_0432"
                     /note="identified by match to protein family HMM PF04122"
                     /codon_start=1
                     /transl_table=11
                     /product="amidase"
                     /protein_id="YP_001386327.1"
                     /db_xref="GI:153934774"
                     /db_xref="GeneID:5398372"
                     /db_xref="Pathema:CLC_0432"
                     /translation="MLKKNKKILSVITATLVMAIGISFTNVQAASIKRMNGSNRIDTA
                     NKTAKEIFQKSEAVILVNGTGYADAVSSAPLSKLLNAPILLTENKGALESDVLKTIND
                     LQNVKKIYIVGGTGVVSTTMENSLKSKGFQVIRYDGQKYGDKTRYGTNARVAEEILKL
                     SPKSKTGILVNGQDGYADALSVASVAATNGYPVLFGNTQNVPNVIKNNIISKNKLQIL
                     AVGGNGVLPSSVVSSVSGKKITSDAQSKNRFQTNLAVLEYFKGKGGLDFSNVYIAAGG
                     QAGKAGQSQFADALVASAAAAKTGSPLVLSGLGAGTTEIANAEKFIETNIEDEGSLVI
                     VGGKASVSESVEQKLDEKVGDFRILDIF"
     misc_feature    427597..427875
                     /locus_tag="CLC_0432"
                     /note="Putative cell wall binding repeat 2; Region:
                     CW_binding_2; pfam04122"
                     /db_xref="CDD:217910"
     misc_feature    427930..>428085
                     /locus_tag="CLC_0432"
                     /note="Putative cell wall binding repeat 2; Region:
                     CW_binding_2; pfam04122"
                     /db_xref="CDD:217910"
     misc_feature    428236..428544
                     /locus_tag="CLC_0432"
                     /note="Putative cell wall binding repeat 2; Region:
                     CW_binding_2; pfam04122"
                     /db_xref="CDD:217910"
     gene            complement(428755..429291)
                     /locus_tag="CLC_0433"
                     /db_xref="GeneID:5400602"
                     /db_xref="Pathema:CLC_0433"
     CDS             complement(428755..429291)
                     /locus_tag="CLC_0433"
                     /note="identified by match to protein family HMM PF07456"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386328.1"
                     /db_xref="GI:153934531"
                     /db_xref="GeneID:5400602"
                     /db_xref="Pathema:CLC_0433"
                     /translation="MKNKNYNTRKMIFLSLMVGIALIIYIIEAQIPVLFPGIKLGLAN
                     VISLVTLIMLGGYEALLVMFLRTLLGSMFAGNMSSFMFSLAGGFLSNIIMIILYYKFK
                     ENLSLSSISICGAIFHNIGQLFIAAFVVKDFRIYVYLPVLMISGIITGYFIGLCTKYL
                     NKNLGNVKLFNELKNNNQ"
     misc_feature    complement(428812..429198)
                     /locus_tag="CLC_0433"
                     /note="Heptaprenyl diphosphate synthase component I;
                     Region: Hpre_diP_synt_I; pfam07456"
                     /db_xref="CDD:219416"
     gene            complement(429309..429701)
                     /locus_tag="CLC_0434"
                     /db_xref="GeneID:5399342"
                     /db_xref="Pathema:CLC_0434"
     CDS             complement(429309..429701)
                     /locus_tag="CLC_0434"
                     /note="identified by match to protein family HMM PF07009"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386329.1"
                     /db_xref="GI:153937248"
                     /db_xref="GeneID:5399342"
                     /db_xref="Pathema:CLC_0434"
                     /translation="MKKGDKIVIYIVSILLALSVISIIFFKFFVKSENAVAVIKQNGK
                     IIEKVDLSKVKEKRQLKINYNDKDHKGYNVIEIDKGSIRFIDADCPDKVCIKSGVLKK
                     PGETAACLPHKLIITIEKNDKEVDEVSY"
     misc_feature    complement(429336..429599)
                     /locus_tag="CLC_0434"
                     /note="Listerrria innocua Lin0431  is similar to the
                     N-Utilization Substance G (NusG) N terminal (NGN) insert
                     (DII); Region: Lin0431_like; cd09911"
                     /db_xref="CDD:197365"
     misc_feature    complement(order(429534..429539,429558..429575))
                     /locus_tag="CLC_0434"
                     /note="trimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:197365"
     gene            complement(429816..430850)
                     /locus_tag="CLC_0435"
                     /db_xref="GeneID:5400479"
                     /db_xref="Pathema:CLC_0435"
     CDS             complement(429816..430850)
                     /locus_tag="CLC_0435"
                     /note="identified by match to protein family HMM PF02424"
                     /codon_start=1
                     /transl_table=11
                     /product="apbE family protein"
                     /protein_id="YP_001386330.1"
                     /db_xref="GI:153936735"
                     /db_xref="GeneID:5400479"
                     /db_xref="Pathema:CLC_0435"
                     /translation="MKIKYVTILLLCICLPLVFVGCNSKPEEPVSRETYLMGTIINIK
                     AYGKNADKAVQSSVDKISDIENKMSLNISTSEVNKINKNAGIAPVKVSKNTFDVVKAS
                     LIYSEKSKGSFDITVEPLVSLWGIGTDKARIPSKDEISNALKLINYKDVIINEKESTV
                     MLKRKGQAIDLGAIAKGYTADELKKVLLNYNVSSAFLSLGGNVYVLGNKPDKTFWKIG
                     VQNPLEPRGDYLGIVSVSDKSVVTSGNYERFFERNGKRYHHIFDTKTGYPAEKGLISV
                     SIISDKSIDGDALSTSVYTLGLDEGKKLIESLKGVEAIFVTNDKKVYVTSGLKDIFKL
                     TNTDFKLQNK"
     misc_feature    complement(429843..430850)
                     /locus_tag="CLC_0435"
                     /note="Membrane-associated lipoprotein involved in
                     thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE;
                     COG1477"
                     /db_xref="CDD:224394"
     misc_feature    complement(429903..430670)
                     /locus_tag="CLC_0435"
                     /note="ApbE family; Region: ApbE; pfam02424"
                     /db_xref="CDD:217027"
     gene            complement(431698..433752)
                     /locus_tag="CLC_0436"
                     /db_xref="GeneID:5400515"
                     /db_xref="Pathema:CLC_0436"
     CDS             complement(431698..433752)
                     /locus_tag="CLC_0436"
                     /note="identified by match to protein family HMM PF00015;
                     match to protein family HMM PF00672; match to protein
                     family HMM PF02743"
                     /codon_start=1
                     /transl_table=11
                     /product="methyl-accepting chemotaxis protein"
                     /protein_id="YP_001386331.1"
                     /db_xref="GI:153935997"
                     /db_xref="GeneID:5400515"
                     /db_xref="Pathema:CLC_0436"
                     /translation="MKLNFKSIKNLILCTILPLTILSMVFLSILSYSNSKNIISNEIE
                     DKMKFQTKAISENIEKSLLSHKKIAETLSKTVESSKDIMPRDTYKNIVGNFIKTNDET
                     FGTGIWFEPYKFNAKEKFFGPYCFKDGNKIVYTDKYSTESYNYMNYDWYKSAKSSTAS
                     CVWSKPYLDELSNITMVSTSAAFKDKSGNFLGVATADINLDRLQKMIANVKFGKTGNA
                     ILLDKDGNYITNPNKSKIIKMNITKEAENSLSTMGKEMLANKKGTGTYKEGDVKKLVY
                     YDSIPETGWIIALSIDQSEVTAPLKQLLIKSIVFILIALALIIIFILWFSNYLTKNIN
                     RVNIFSETISNGDLTKSLSIDSKDELGAMGKNLNSMKNTLNNIINNFNISLKDIVSIS
                     EELSASAEQTQSASDQIAQSVSDIATGSEAQSKTSQDSVKNLEEIYKGMEQISDNVQS
                     VTNYSMATYKKAEEGNITVSTAINKMKDIEESVIDSANIVNTLEEKSNNIDNIVSLIT
                     SISEQTNLLALNAAIEAARAGEAGKGFAVVAEEVRKLAEESSASAGSIGDIIKEVQSD
                     ITKVVNSMKIETNNVNEGIVIVQNTKSSFENILSSIDKVSREMQDVSAVVEEITASTE
                     TVVNSLEKIDSIIKESSSNTQNVAASAEEQTAIMKEVAEVATKLSQMSLKLEKDINIF
                     KI"
     misc_feature    complement(433054..433266)
                     /locus_tag="CLC_0436"
                     /note="Cache domain; Region: Cache_1; pfam02743"
                     /db_xref="CDD:217211"
     misc_feature    complement(432631..>432732)
                     /locus_tag="CLC_0436"
                     /note="Histidine kinase, Adenylyl cyclase,
                     Methyl-accepting protein, and Phosphatase (HAMP) domain.
                     HAMP is a signaling domain which occurs in a wide variety
                     of signaling proteins, many of which are bacterial. The
                     HAMP domain consists of two alpha helices...; Region:
                     HAMP; cd06225"
                     /db_xref="CDD:100122"
     misc_feature    complement(order(432631..432636,432643..432648,
                     432652..432657,432664..432669,432673..432678,
                     432724..432726,432730..432732))
                     /locus_tag="CLC_0436"
                     /note="dimerization interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:100122"
     misc_feature    complement(431704..432573)
                     /locus_tag="CLC_0436"
                     /note="Methyl-accepting chemotaxis-like domains
                     (chemotaxis sensory transducer); Region: MA; smart00283"
                     /db_xref="CDD:214599"
     misc_feature    complement(431872..432450)
                     /locus_tag="CLC_0436"
                     /note="Methyl-accepting chemotaxis protein (MCP),
                     signaling domain; Region: MCP_signal; cd11386"
                     /db_xref="CDD:206779"
     misc_feature    complement(order(431875..431880,431887..431889,
                     431896..431901,431905..431910,431917..431922,
                     431926..431931,431938..431940,431947..431952,
                     431959..431961,431968..431973,431980..431985,
                     431989..431994,432001..432003,432010..432015,
                     432022..432024,432031..432036,432073..432078,
                     432085..432090,432094..432099,432106..432111,
                     432118..432120,432127..432132,432139..432141,
                     432148..432150,432160..432162,432181..432183,
                     432190..432192,432202..432204,432211..432216,
                     432223..432225,432232..432234,432241..432246,
                     432253..432258,432265..432267,432274..432279,
                     432283..432285,432295..432300,432304..432309,
                     432316..432318,432325..432330,432337..432342,
                     432349..432351,432358..432363,432370..432372,
                     432379..432384,432388..432393,432400..432402,
                     432409..432414,432421..432426))
                     /locus_tag="CLC_0436"
                     /note="dimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:206779"
     misc_feature    complement(432115..432216)
                     /locus_tag="CLC_0436"
                     /note="putative CheW interface [polypeptide binding];
                     other site"
                     /db_xref="CDD:206779"
     gene            complement(434429..436159)
                     /locus_tag="CLC_0437"
                     /db_xref="GeneID:5400425"
                     /db_xref="Pathema:CLC_0437"
     CDS             complement(434429..436159)
                     /locus_tag="CLC_0437"
                     /note="identified by match to protein family HMM PF00004;
                     match to protein family HMM PF01434; match to protein
                     family HMM PF06480; match to protein family HMM PF07728;
                     match to protein family HMM TIGR01241"
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-dependent metalloprotease"
                     /protein_id="YP_001386332.1"
                     /db_xref="GI:153935844"
                     /db_xref="GeneID:5400425"
                     /db_xref="Pathema:CLC_0437"
                     /translation="MNKIKNKIIILPLLTAFLSIAVMISLNFYSSKKTNKDYNEFLKD
                     LNAKKISTVYMTDTSTIKVKLNSNEIYETDNPRSINFKEDLLKKGVKISENSPMTPKE
                     VIPLSFLVLSVISIAFIGLKDSTIFKNKKLSSVDSLDADEVENIKLNFNSVAGNEEAK
                     ESVKDIVDFLKNPEKYSSYGARMPKGIILYGDPGTGKTLMAKAVAGEAGVPFYAMSGS
                     DFVQVYVGVGASRIRQLFKKARSKGKAVIFIDEIDAIGKKRSSEKAGGSEERDQTLNA
                     LLTEMSGFNEKEGIIIMAATNRLDILDEALLRPGRFDRHIEVNLPDVVAREKILNLHL
                     KNKPIGNINIKDWAKKTAYFSGAKIENLLNEAAILACKENSVKIEDYHVDKAFSVVLA
                     GYEKQNRDYIKNKDKKITAYHEIGHALISSIVLPKEKISKVTIIPSTKGAGGYTLSIP
                     EDSLYQSKEYLRNRIMVLLGGRAAEEIIFGENHITTGAHNDLQRSTSIAYKMVTEYGM
                     GETLGLLNMGSLKHELSINENDIIKECKSLIDNIYKDVKNTLLKEKDQLDSLSEKLLD
                     KETLYEEDFK"
     misc_feature    complement(434432..436123)
                     /locus_tag="CLC_0437"
                     /note="ATP-dependent Zn proteases [Posttranslational
                     modification, protein turnover, chaperones]; Region: HflB;
                     COG0465"
                     /db_xref="CDD:223541"
     misc_feature    complement(435200..435700)
                     /locus_tag="CLC_0437"
                     /note="The AAA+ (ATPases Associated with a wide variety of
                     cellular Activities) superfamily represents an ancient
                     group of ATPases belonging to the ASCE (for additional
                     strand, catalytic E) division of the P-loop NTPase fold.
                     The ASCE division also includes ABC; Region: AAA; cd00009"
                     /db_xref="CDD:99707"
     misc_feature    complement(435566..435589)
                     /locus_tag="CLC_0437"
                     /note="Walker A motif; other site"
                     /db_xref="CDD:99707"
     misc_feature    complement(order(435269..435271,435410..435412,
                     435563..435586))
                     /locus_tag="CLC_0437"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:99707"
     misc_feature    complement(435407..435424)
                     /locus_tag="CLC_0437"
                     /note="Walker B motif; other site"
                     /db_xref="CDD:99707"
     misc_feature    complement(435227..435229)
                     /locus_tag="CLC_0437"
                     /note="arginine finger; other site"
                     /db_xref="CDD:99707"
     misc_feature    complement(434432..435016)
                     /locus_tag="CLC_0437"
                     /note="Peptidase family M41; Region: Peptidase_M41;
                     pfam01434"
                     /db_xref="CDD:216502"
     gene            436379..437434
                     /locus_tag="CLC_0438"
                     /db_xref="GeneID:5398908"
                     /db_xref="Pathema:CLC_0438"
     CDS             436379..437434
                     /locus_tag="CLC_0438"
                     /note="identified by match to protein family HMM PF06803"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386333.1"
                     /db_xref="GI:153935088"
                     /db_xref="GeneID:5398908"
                     /db_xref="Pathema:CLC_0438"
                     /translation="MKISSVKVTLTEIDIMTLIKDYLKVPGLHIESIYLGDIIEVKGS
                     YTKGISIPFFAKLALGSVNNNTINIRIFKIKVMKLHIIDAIKKLALKLSLSNFKDYGI
                     YVKKENIKIDLDILSKKIPYTYFKIEKLNLYNGYVDVFVDNIVYSKENEKEEKEVKEE
                     KFSSNKKYKPIYKRKDNYSLTRKNLKIKLPNKYNKFFEYSMLIPDITVLLYRLLKDKR
                     VDVKTKTLVVSVLSYIVSPVDIIPSFIPFIGQIDDFAVVFFGLNKIIEEVPEEIILEN
                     WEGQGNIIFLVKQVIGYISNIIGTENVKTLMKFANNIVGFIKEKYDGKSNLKAHKQED
                     KAYEEVASVDEKSNNIH"
     misc_feature    437039..437155
                     /locus_tag="CLC_0438"
                     /note="Protein of unknown function (DUF1232); Region:
                     DUF1232; pfam06803"
                     /db_xref="CDD:203520"
     gene            437409..437858
                     /gene="rnhA"
                     /locus_tag="CLC_0439"
                     /db_xref="GeneID:5398346"
                     /db_xref="Pathema:CLC_0439"
     CDS             437409..437858
                     /gene="rnhA"
                     /locus_tag="CLC_0439"
                     /EC_number="3.1.26.4"
                     /note="An endonuclease that specifically degrades the RNA
                     strand of RNA-DNA hybrids"
                     /codon_start=1
                     /transl_table=11
                     /product="ribonuclease H"
                     /protein_id="YP_001386334.1"
                     /db_xref="GI:153936460"
                     /db_xref="GeneID:5398346"
                     /db_xref="Pathema:CLC_0439"
                     /translation="MKKVIIYTDGACRGNGQENTIGAYGIVLMYGEHKKEIKKAFRDT
                     TNNIMELSAVVEALSLLKEPCSIELYSDSAYVINAINQKWLDNWKKNNWKTASKSPVK
                     NKELWEKLDELLKKHSVKFIKVKGHSDNEYNNRCDKLANEAMDEFNV"
     misc_feature    437415..437843
                     /gene="rnhA"
                     /locus_tag="CLC_0439"
                     /note="RNase HI family found mainly in prokaryotes;
                     Region: RNase_HI_prokaryote_like; cd09278"
                     /db_xref="CDD:187702"
     misc_feature    order(437433..437444,437541..437549,437556..437558,
                     437622..437624,437775..437777,437829..437831)
                     /gene="rnhA"
                     /locus_tag="CLC_0439"
                     /note="RNA/DNA hybrid binding site [nucleotide binding];
                     other site"
                     /db_xref="CDD:187702"
     misc_feature    order(437433..437435,437556..437558,437622..437624,
                     437817..437819)
                     /gene="rnhA"
                     /locus_tag="CLC_0439"
                     /note="active site"
                     /db_xref="CDD:187702"
     gene            437921..438097
                     /locus_tag="CLC_0440"
                     /db_xref="GeneID:5400061"
                     /db_xref="Pathema:CLC_0440"
     CDS             437921..438097
                     /locus_tag="CLC_0440"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386335.1"
                     /db_xref="GI:153935454"
                     /db_xref="GeneID:5400061"
                     /db_xref="Pathema:CLC_0440"
                     /translation="MNNRFLSGIAAGAILGATAGMLIVPQLDRGTRRRIKRTSRTMMG
                     MAGNMMGNMRGIMR"
     gene            438278..439582
                     /locus_tag="CLC_0441"
                     /db_xref="GeneID:5401177"
                     /db_xref="Pathema:CLC_0441"
     CDS             438278..439582
                     /locus_tag="CLC_0441"
                     /note="identified by match to protein family HMM PF00515;
                     match to protein family HMM PF01381"
                     /codon_start=1
                     /transl_table=11
                     /product="TPR repeat-containing DNA binding protein"
                     /protein_id="YP_001386336.1"
                     /db_xref="GI:153936558"
                     /db_xref="GeneID:5401177"
                     /db_xref="Pathema:CLC_0441"
                     /translation="MEILSLGEKIKRRRKELNMTLKDLAGDRITPGQISLVESGKSNP
                     SMDLLEYLAETLNTSIEYFMESEDTQAEKICKYYENIAESHIINDNLNIAEQYIEKSL
                     YYAEKYNLEYRKARNLYLRGLIYMHKGDLPVAQQYLLSSNVIFIKNNNYEEIVNTFVN
                     LGKITIFLKAYHSSCSYFQQAEKVYSDHDIGNDDLLAEIYYHIAYTYFKLDNINKAID
                     YSYLAKEKYRQLNNKKEYANSLLLLSQQYSEKGEMDRAIKYSEKALNIFKEVDDVLYT
                     SKIENNLGKLFYEFDNLEESFIHFNRAKEIRESNKDPLLLETLINICENYIKQKDIHN
                     CKLILDEIMNNLENGNEIALVDYYLLRHRVELLQGDLEEAESTLLMALNFVKNMQDKE
                     RIGEISIIIGKFYIDNGNDKEAAKYLNEGVEMFKEVGLLKDM"
     misc_feature    438290..438643
                     /locus_tag="CLC_0441"
                     /note="Predicted transcriptional regulators
                     [Transcription]; Region: HipB; COG1396"
                     /db_xref="CDD:224314"
     misc_feature    438296..438466
                     /locus_tag="CLC_0441"
                     /note="Helix-turn-helix XRE-family like proteins.
                     Prokaryotic DNA binding proteins belonging to the
                     xenobiotic response element family of transcriptional
                     regulators; Region: HTH_XRE; cd00093"
                     /db_xref="CDD:238045"
     misc_feature    order(438308..438310,438320..438322,438392..438394)
                     /locus_tag="CLC_0441"
                     /note="non-specific DNA binding site [nucleotide binding];
                     other site"
                     /db_xref="CDD:238045"
     misc_feature    order(438317..438319,438389..438391)
                     /locus_tag="CLC_0441"
                     /note="salt bridge; other site"
                     /db_xref="CDD:238045"
     misc_feature    order(438338..438343,438371..438373,438380..438382,
                     438392..438397)
                     /locus_tag="CLC_0441"
                     /note="sequence-specific DNA binding site [nucleotide
                     binding]; other site"
                     /db_xref="CDD:238045"
     misc_feature    438854..439084
                     /locus_tag="CLC_0441"
                     /note="Tetratricopeptide repeat; Region: TPR_12;
                     pfam13424"
                     /db_xref="CDD:205602"
     misc_feature    438869..439204
                     /locus_tag="CLC_0441"
                     /note="Tetratricopeptide repeat domain; typically contains
                     34 amino acids
                     [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-
                     X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in
                     a variety of organisms including bacteria, cyanobacteria,
                     yeast, fungi; Region: TPR; cd00189"
                     /db_xref="CDD:238112"
     misc_feature    order(438869..438874,438878..438883,438890..438895,
                     438998..439003,439007..439012,439019..439024,
                     439100..439102,439121..439123,439130..439135,
                     439142..439147)
                     /locus_tag="CLC_0441"
                     /note="binding surface"
                     /db_xref="CDD:238112"
     misc_feature    order(438887..438889,438923..438925,438935..438937,
                     438944..438946,439007..439009,439043..439045,
                     439055..439057,439064..439066,439127..439129,
                     439163..439165,439175..439177,439184..439186)
                     /locus_tag="CLC_0441"
                     /note="TPR motif; other site"
                     /db_xref="CDD:238112"
     misc_feature    438980..439204
                     /locus_tag="CLC_0441"
                     /note="Tetratricopeptide repeat; Region: TPR_12;
                     pfam13424"
                     /db_xref="CDD:205602"
     gene            439614..440867
                     /locus_tag="CLC_0442"
                     /db_xref="GeneID:5399952"
                     /db_xref="Pathema:CLC_0442"
     CDS             439614..440867
                     /locus_tag="CLC_0442"
                     /note="identified by match to protein family HMM PF00515;
                     match to protein family HMM PF07719"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386337.1"
                     /db_xref="GI:153936802"
                     /db_xref="GeneID:5399952"
                     /db_xref="Pathema:CLC_0442"
                     /translation="MEILSVGQKIKRARVYKGYTLKELCGDIISVSKMSCIENDKIRP
                     DDEILKIISEELEIDIKYLKAGVKEQLLDNIDKLKDNKNSSDYEKILEYNLKYAEEYK
                     YYHIAFYIIHMLFNYYLENSEIEKLQLIISKYYDYWLKSGIDDNKIIYYMDIAKFFFE
                     TKEYIEAASYYRSIRKIAHEKNNYILLSEATYDEAACYIKIKEFDKAYEIAVSLIDLI
                     DFLDNNIKKAEVYKILAILSLRLDRKKFENYEEKSYVLYGNDLIHKADATFKYATAMF
                     DIGEKDKGISYINKALDLYPKNNTRAFVSFMLDTMKVLLKNDVLYRAQEISDEILNYA
                     IKINNIRFIEKAYYYKAIILEKQGSLDTAEMYMNLSLDSILKFGTKQEIYERYMKMGN
                     MYHKMNQVGESIKYFNLAIKLSKKL"
     misc_feature    439632..>439745
                     /locus_tag="CLC_0442"
                     /note="Helix-turn-helix domain; Region: HTH_19; pfam12844"
                     /db_xref="CDD:205103"
     misc_feature    440634..440861
                     /locus_tag="CLC_0442"
                     /note="Tetratricopeptide repeat; Region: TPR_12;
                     pfam13424"
                     /db_xref="CDD:205602"
     gene            441348..442319
                     /locus_tag="CLC_0444"
                     /db_xref="GeneID:5398821"
                     /db_xref="Pathema:CLC_0444"
     CDS             441348..442319
                     /locus_tag="CLC_0444"
                     /note="identified by similarity to GB:AAP09991.1"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386339.1"
                     /db_xref="GI:153934815"
                     /db_xref="GeneID:5398821"
                     /db_xref="Pathema:CLC_0444"
                     /translation="MSKIAKKIGIGILVIICILLIIILISFINHKVKLKKESKLFEPL
                     GKMVKVNGHSMHVYTEGKGEVTLVFMSGGGTCSPTLDFKSLYSRLSGDYRIAVVEKAG
                     YGFSEIIDMPRDIDTVLEETRKALKLAGEKAPYVLFPHSMSGIEALYWVEKYPDEVVG
                     IVGLDPAVPKAYDNYPMPNKIVLNLSQFVAKIGLTRFIPSICNSSAAIQQGSLTEHEK
                     EVYRAIFYRRTATKTMLNELKCIQESAKKINKMGIPEVPMLFFISNGNGTGWGKEQWQ
                     QSLKEYISKVSISQQVLFDCGHYIHDYEYERIALESKEFIKNIVLAK"
     misc_feature    441480..442304
                     /locus_tag="CLC_0444"
                     /note="Predicted hydrolases or acyltransferases
                     (alpha/beta hydrolase superfamily) [General function
                     prediction only]; Region: MhpC; COG0596"
                     /db_xref="CDD:223669"
     gene            442479..442658
                     /locus_tag="CLC_0445"
                     /db_xref="GeneID:5401298"
                     /db_xref="Pathema:CLC_0445"
     CDS             442479..442658
                     /locus_tag="CLC_0445"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386340.1"
                     /db_xref="GI:153934876"
                     /db_xref="GeneID:5401298"
                     /db_xref="Pathema:CLC_0445"
                     /translation="MEINYGSIIALVINLVLIFLIIKVIFKAIQGLKYFINRNKEMDK
                     KLDIIMSKLENKQNN"
     gene            442689..443294
                     /locus_tag="CLC_0446"
                     /db_xref="GeneID:5400850"
                     /db_xref="Pathema:CLC_0446"
     CDS             442689..443294
                     /locus_tag="CLC_0446"
                     /note="identified by match to protein family HMM PF01965"
                     /codon_start=1
                     /transl_table=11
                     /product="DJ-1/PfpI family protein"
                     /protein_id="YP_001386341.1"
                     /db_xref="GI:153935471"
                     /db_xref="GeneID:5400850"
                     /db_xref="Pathema:CLC_0446"
                     /translation="MRYRVDILLFDKFETLDVFGPVEILGSVPDTFKLNFISLKGGIV
                     ESSQNVRIDTNLYTNEKNIEKILLVPGGIGTREKVDDNNFINFIENISNQSKYIISIC
                     TGSALLAKTGILNGKKATTNKLAFKWVTEQGKDVLWVKESRWVKDGSIYTSSGVSAGM
                     DMALGFIADIIGKTKALEISQRIEYFWNEDSKYDPFSKMYE"
     misc_feature    442698..443228
                     /locus_tag="CLC_0446"
                     /note="DJ-1 family protein; Region: not_thiJ; TIGR01383"
                     /db_xref="CDD:213612"
     misc_feature    442701..443246
                     /locus_tag="CLC_0446"
                     /note="Type 1 glutamine amidotransferase (GATase1)-like
                     domain found in a subgroup of proteins similar to PfpI
                     from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139"
                     /db_xref="CDD:153233"
     misc_feature    442992..442994
                     /locus_tag="CLC_0446"
                     /note="conserved cys residue [active]"
                     /db_xref="CDD:153233"
     gene            443503..444429
                     /locus_tag="CLC_0448"
                     /db_xref="GeneID:5398515"
     CDS             443503..444429
                     /locus_tag="CLC_0448"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_008472677.1"
                     /db_xref="GI:532643406"
                     /db_xref="GeneID:5398515"
                     /translation="MLSRREFIRQSLELHLFFGRIMKEHSFFLQIGFTPKDSRLMQQA
                     NAFRMEFDRLLADAIYLSNGVVSNSVLKSGEVVTPFTLKAEMASAYFTGVNIPIRLTE
                     VETGLMGDSSTKVNPMLEEKVSMLNQRAMGLTRALAQFKTKILSDVICCRIFTVNYPL
                     LIDHILREAKFYFQLVRRLQNREEINLEKEAYEQETFWNRIMAEHSKFIRGLLDPTED
                     ELIKTANNFANEFDELTEEAKEAMDNAMAISKVTDDSLKATIEIKKFKAQGTQGLVEC
                     KIKSIIIPLLGDHTLREANHYLRLLKIFEKSE"
     misc_feature    443521..444036
                     /locus_tag="CLC_0448"
                     /note="Domain of unknown function (DUF2935); Region:
                     DUF2935; pfam11155"
                     /db_xref="CDD:192714"
     misc_feature    444064..444408
                     /locus_tag="CLC_0448"
                     /note="Domain of unknown function (DUF2935); Region:
                     DUF2935; pfam11155"
                     /db_xref="CDD:192714"
     gene            444793..447393
                     /gene="clpB"
                     /locus_tag="CLC_0449"
                     /db_xref="GeneID:5398945"
                     /db_xref="Pathema:CLC_0449"
     CDS             444793..447393
                     /gene="clpB"
                     /locus_tag="CLC_0449"
                     /note="identified by match to protein family HMM PF00004;
                     match to protein family HMM PF02861; match to protein
                     family HMM PF07724; match to protein family HMM PF07728;
                     match to protein family HMM TIGR03346"
                     /codon_start=1
                     /transl_table=11
                     /product="clpB protein"
                     /protein_id="YP_001386344.1"
                     /db_xref="GI:153935231"
                     /db_xref="GeneID:5398945"
                     /db_xref="Pathema:CLC_0449"
                     /translation="MNIEKLTLKVQQAINDSQLVAVKYNHQQIDTIHLFSALISQDDG
                     LIPNILGKMGVNIRDINAETNRVLDNMPKVLGEGAQSSSVYPTRRFEEVFVRAEQIAK
                     DFKDSYISVEHVLLAIMDVDRNTVLPILEKFGVKKSEFLKALSAVRGSQRVDNQDPEG
                     TYEALVKYGRNLVEEAKKHKLDPVIGRDEEIRRVVRILSRRTKNNPVLIGEPGVGKTA
                     IVEGLAERIVRGDVPESLKNKIIFSLDMGALIAGAKYRGEFEERLKAVLKEVQNSEGR
                     IILFIDEIHTIVGAGKTEGSMDAGNLIKPMLARGELHCIGATTFDEYRQYIEKDKALE
                     RRFQPVITDEPTVEDTVSILRGLKERFEIYHGIRIHDSAIVAAAKLSSRYITDRYLPD
                     KAIDLIDEACAMIRTDIDSMPTEMDSMKRKIFQLEIEKEALSKEKDVASKERLEVLEK
                     ELSELKEKDKEMTAKYENEKSHITKIRDLKEKLDDVRGQMEKAEREYDLNKVAELKYG
                     LIPALQREIEEKEKLIKENSNGNAMLKEEVTEQEISEIISKWTGIPVTRLVETERQKL
                     LQLGDQLETRVIGQGEAVKAVTNAVIRARAGLKDPRKPIGSFIFLGPTGVGKTELAKT
                     LARTLFDTEENIIRIDMSEYMEKYSVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSVIL
                     FDEIEKAHDDVFNIFLQILDDGRLTDNKGKVIDFKNTIIIMTSNLGSNYLLDNESKEG
                     IDESIRTRVKEALKARFKPEFLNRVDDIIMFKPLTVEDIKRIIDIFLDDIRKRLKDKN
                     IQLKITDSAKDIMAKEGYDPIYGARPLKRYIEDTIETEIAKQIIAGNIYEGTTVGVDL
                     KGESIVIERI"
     misc_feature    444808..447378
                     /gene="clpB"
                     /locus_tag="CLC_0449"
                     /note="ATP-dependent chaperone ClpB; Region:
                     chaperone_ClpB; TIGR03346"
                     /db_xref="CDD:234173"
     misc_feature    444841..444999
                     /gene="clpB"
                     /locus_tag="CLC_0449"
                     /note="Clp amino terminal domain; Region: Clp_N;
                     pfam02861"
                     /db_xref="CDD:217254"
     misc_feature    445081..445239
                     /gene="clpB"
                     /locus_tag="CLC_0449"
                     /note="Clp amino terminal domain; Region: Clp_N;
                     pfam02861"
                     /db_xref="CDD:217254"
     misc_feature    445345..445827
                     /gene="clpB"
                     /locus_tag="CLC_0449"
                     /note="The AAA+ (ATPases Associated with a wide variety of
                     cellular Activities) superfamily represents an ancient
                     group of ATPases belonging to the ASCE (for additional
                     strand, catalytic E) division of the P-loop NTPase fold.
                     The ASCE division also includes ABC; Region: AAA; cd00009"
                     /db_xref="CDD:99707"
     misc_feature    445420..445443
                     /gene="clpB"
                     /locus_tag="CLC_0449"
                     /note="Walker A motif; other site"
                     /db_xref="CDD:99707"
     misc_feature    order(445423..445446,445636..445638,445747..445749)
                     /gene="clpB"
                     /locus_tag="CLC_0449"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:99707"
     misc_feature    445624..445641
                     /gene="clpB"
                     /locus_tag="CLC_0449"
                     /note="Walker B motif; other site"
                     /db_xref="CDD:99707"
     misc_feature    445798..445800
                     /gene="clpB"
                     /locus_tag="CLC_0449"
                     /note="arginine finger; other site"
                     /db_xref="CDD:99707"
     misc_feature    446524..447030
                     /gene="clpB"
                     /locus_tag="CLC_0449"
                     /note="The AAA+ (ATPases Associated with a wide variety of
                     cellular Activities) superfamily represents an ancient
                     group of ATPases belonging to the ASCE (for additional
                     strand, catalytic E) division of the P-loop NTPase fold.
                     The ASCE division also includes ABC; Region: AAA; cd00009"
                     /db_xref="CDD:99707"
     misc_feature    446626..446649
                     /gene="clpB"
                     /locus_tag="CLC_0449"
                     /note="Walker A motif; other site"
                     /db_xref="CDD:99707"
     misc_feature    order(446629..446652,446842..446844,446968..446970)
                     /gene="clpB"
                     /locus_tag="CLC_0449"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:99707"
     misc_feature    446830..446847
                     /gene="clpB"
                     /locus_tag="CLC_0449"
                     /note="Walker B motif; other site"
                     /db_xref="CDD:99707"
     misc_feature    447010..447012
                     /gene="clpB"
                     /locus_tag="CLC_0449"
                     /note="arginine finger; other site"
                     /db_xref="CDD:99707"
     misc_feature    447112..447348
                     /gene="clpB"
                     /locus_tag="CLC_0449"
                     /note="C-terminal, D2-small domain, of ClpB protein;
                     Region: ClpB_D2-small; pfam10431"
                     /db_xref="CDD:204486"
     gene            complement(448220..448684)
                     /locus_tag="CLC_0450"
                     /db_xref="GeneID:5400726"
                     /db_xref="Pathema:CLC_0450"
     CDS             complement(448220..448684)
                     /locus_tag="CLC_0450"
                     /note="identified by match to protein family HMM PF01037"
                     /codon_start=1
                     /transl_table=11
                     /product="AsnC family transcriptional regulator"
                     /protein_id="YP_001386345.1"
                     /db_xref="GI:153935416"
                     /db_xref="GeneID:5400726"
                     /db_xref="Pathema:CLC_0450"
                     /translation="MDLNIDGLDELDLQILEILIKDSRTPFLEIARKCHVSGGTIHVR
                     MKKMHDIGIIKGTKLIIDNSKLGYDVCCFIGIYLDKASYFNSVLKELNEIKEITELHY
                     TTGQYSIFVKVICKSITHLQDLLMNKIQRVEGIQRTDTFISLSQLIDRNINI"
     misc_feature    complement(448538..>448618)
                     /locus_tag="CLC_0450"
                     /note="AsnC-type helix-turn-helix domain; Region:
                     HTH_AsnC-type; pfam13404"
                     /db_xref="CDD:205582"
     misc_feature    complement(448247..448465)
                     /locus_tag="CLC_0450"
                     /note="AsnC family; Region: AsnC_trans_reg; pfam01037"
                     /db_xref="CDD:216258"
     gene            449209..449583
                     /locus_tag="CLC_0451"
                     /db_xref="GeneID:5399834"
                     /db_xref="Pathema:CLC_0451"
     CDS             449209..449583
                     /locus_tag="CLC_0451"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386346.1"
                     /db_xref="GI:153936302"
                     /db_xref="GeneID:5399834"
                     /db_xref="Pathema:CLC_0451"
                     /translation="MPVWLKFALQILFFSIIVIIGYTALKVYVLDKININKWVVFALS
                     IFILIFPALIKLNINGTIWQYVQSAIVIILTLWFLDLMGIGAGSRPKKKKNDIVIRPK
                     AKPNRAKNFKKENNKKENNKKK"
     gene            450207..451580
                     /locus_tag="CLC_0452"
                     /db_xref="GeneID:5400932"
                     /db_xref="Pathema:CLC_0452"
     CDS             450207..451580
                     /locus_tag="CLC_0452"
                     /note="identified by match to protein family HMM PF00324;
                     match to protein family HMM PF03845"
                     /codon_start=1
                     /transl_table=11
                     /product="amino acid permease"
                     /protein_id="YP_001386347.1"
                     /db_xref="GI:153936919"
                     /db_xref="GeneID:5400932"
                     /db_xref="Pathema:CLC_0452"
                     /translation="MENEGHSHKKIGLFGATCVVAGNMIGSGVFMLPASLAAVSSPGT
                     TLIAWLVTGIGAIFMALSCARLGSRIPKTGGPYEFGKLAFGDFIGFLNAWLYWSATWI
                     SNAAIIIAIGSYASYLIPALNNGFNALLFNSAILWIFTFLNIKGAKEAASFETVITVF
                     KFLVFIFFIIFAAIHFNVANITPIMPKEKGMNTLPLAAATTLWAFTGFESSTVGAGTI
                     KDPEKNISRSTILGLVITILFYVAISFFAMGAIPKDVLANSPSPMTDILAQFFGSGVV
                     KVFNLAIVITILGTIAGWIMIAGQMSYAVAKDGLFPAVFAKLHHKYKTPYKGLIINAI
                     LTNILLILNSSKGMVSAYNFMILLATLSYLPVYATTSASDIVLLFKCRGQLTVSKFIK
                     IAIIPLIGFTYACWAIYGSGAETVLYGFMLMLAGVPFYIYMKLKNKKDISKATIDIDN
                     IVECFNE"
     misc_feature    450225..451562
                     /locus_tag="CLC_0452"
                     /note="transporter, basic amino acid/polyamine antiporter
                     (APA) family; Region: 2A0302; TIGR00905"
                     /db_xref="CDD:129983"
     misc_feature    450231..>450347
                     /locus_tag="CLC_0452"
                     /note="Tryptophan/tyrosine permease family; Region:
                     Trp_Tyr_perm; cl17316"
                     /db_xref="CDD:247870"
     gene            452018..453367
                     /locus_tag="CLC_0453"
                     /db_xref="GeneID:5401280"
                     /db_xref="Pathema:CLC_0453"
     CDS             452018..453367
                     /locus_tag="CLC_0453"
                     /note="identified by match to protein family HMM PF00324;
                     match to protein family HMM PF03845"
                     /codon_start=1
                     /transl_table=11
                     /product="amino acid permease"
                     /protein_id="YP_001386348.1"
                     /db_xref="GI:153937788"
                     /db_xref="GeneID:5401280"
                     /db_xref="Pathema:CLC_0453"
                     /translation="MEENNKLKKEIGLFTATFIVAGNIIGSGIFMLPATLAEVSGPGA
                     TMAAWIITGIGSIFLALSFARLGSKIPKTGGPYQYAKIAFGDFVGFTNAWLYWSATCI
                     SNAAIITAIASYSSSLVPVLKTNGLYAFLYTSAILWAFNILNIIGVKQASAFETVITI
                     FKLGVFLVFVIIGFANFNPQYITPAFPKGKGFSTVPLAAATTLWAFSGFESASIAAGE
                     IKSAEKNVKLSTIYGLLIAVLVYLVISFVAMGGLPQDMLAKSNSPMSDILALHLSSNA
                     VNLFLLAIVITIFGTIAGWIMLTARISYAAAVDGMFPQAFAKIHPKYRTPHVGIIING
                     ILTNIVLLMNYTGSMTSAYNFMILLATLAYLPVYAITNAADILLLSKREEKFNVGNFI
                     INSVVPLIGFIYAIWAVYGTGAESALYGLLLGLMGIPFYIYMKMKDKKQMEKIRKQQ"
     misc_feature    452042..453340
                     /locus_tag="CLC_0453"
                     /note="transporter, basic amino acid/polyamine antiporter
                     (APA) family; Region: 2A0302; TIGR00905"
                     /db_xref="CDD:129983"
     misc_feature    452063..>452806
                     /locus_tag="CLC_0453"
                     /note="Spore germination protein; Region: Spore_permease;
                     cl17796"
                     /db_xref="CDD:248350"
     gene            453719..454228
                     /locus_tag="CLC_0454"
                     /db_xref="GeneID:5398427"
                     /db_xref="Pathema:CLC_0454"
     CDS             453719..454228
                     /locus_tag="CLC_0454"
                     /note="identified by match to protein family HMM PF00132"
                     /codon_start=1
                     /transl_table=11
                     /product="hexapeptide repeat-containing transferase"
                     /protein_id="YP_001386349.1"
                     /db_xref="GI:153934915"
                     /db_xref="GeneID:5398427"
                     /db_xref="Pathema:CLC_0454"
                     /translation="MIYEYNGKKPIIKKNVFLAKSADLIGDVVLEENCTVLFGAVLRG
                     DINSIHIGNGSNVQDNCILHVDEGDLNIYIGDNVTVGHGAILHGCKINDNSLIGMGAI
                     ILNGAEIGSNTIIGAGSLITSNKKIPSGVLCMGSPAKVIRELNEEEIASIKESAEDYL
                     TLNKNFNRE"
     misc_feature    453719..454216
                     /locus_tag="CLC_0454"
                     /note="Carbonic anhydrases/acetyltransferases, isoleucine
                     patch superfamily [General function prediction only];
                     Region: PaaY; COG0663"
                     /db_xref="CDD:223735"
     misc_feature    453752..454150
                     /locus_tag="CLC_0454"
                     /note="Gamma carbonic anhydrase-like: This family is
                     composed of gamma carbonic anhydrase (CA), Ferripyochelin
                     Binding Protein (FBP), E. coli paaY protein, and similar
                     proteins. CAs are zinc-containing enzymes that catalyze
                     the reversible hydration of carbon...; Region:
                     LbH_gamma_CA_like; cd04645"
                     /db_xref="CDD:100051"
     misc_feature    order(453767..453769,453773..453775,453779..453784,
                     453791..453793,453827..453829,453836..453841,
                     453845..453847,453851..453853,453893..453898,
                     453908..453910,453962..453973,453977..453979,
                     454013..454015)
                     /locus_tag="CLC_0454"
                     /note="trimer interface [polypeptide binding]; other site"
                     /db_xref="CDD:100051"
     misc_feature    order(453908..453910,453962..453964,453977..453979)
                     /locus_tag="CLC_0454"
                     /note="putative metal binding site [ion binding]; other
                     site"
                     /db_xref="CDD:100051"
     gene            454273..455145
                     /locus_tag="CLC_0455"
                     /db_xref="GeneID:5400753"
                     /db_xref="Pathema:CLC_0455"
     CDS             454273..455145
                     /locus_tag="CLC_0455"
                     /note="identified by match to protein family HMM PF00753"
                     /codon_start=1
                     /transl_table=11
                     /product="metallo-beta-lactamase"
                     /protein_id="YP_001386350.1"
                     /db_xref="GI:153936510"
                     /db_xref="GeneID:5400753"
                     /db_xref="Pathema:CLC_0455"
                     /translation="MKIKTPRTFLVFIVVVSFFCIKAFAKDRNPEVHFIDTGQSDCIL
                     IKTGKENYLIDTGWEYYSGKVLSYLNSNNVDKIDGVILTHYHDDHYGGLEMLLKTSKV
                     RKIFLPKHDSDDKKKVISTIKKHKVNYAWIEDGWEVKGRKLNLKAIVPINVDSKNENN
                     NSIVLFGKIDGVKYLFLGDCEKREEMDMISNKKIKECDVLKVSHHGFKTSNSDELLDI
                     AKPKIAIVTCDGIYSPDRIIIDRLKNKGIEVFTTSNKGNLIIREQEIIWNRYSYYINK
                     GKNFMGNTYLKFIS"
     misc_feature    454378..454812
                     /locus_tag="CLC_0455"
                     /note="Metallo-beta-lactamase superfamily; Region:
                     Lactamase_B; pfam00753"
                     /db_xref="CDD:216099"
     gene            complement(455465..458083)
                     /locus_tag="CLC_0456"
                     /db_xref="GeneID:5401534"
                     /db_xref="Pathema:CLC_0456"
     CDS             complement(455465..458083)
                     /locus_tag="CLC_0456"
                     /EC_number="3.6.3.8"
                     /note="identified by match to protein family HMM PF00122;
                     match to protein family HMM PF00689; match to protein
                     family HMM PF00690; match to protein family HMM PF00702;
                     match to protein family HMM TIGR01494; match to protein
                     family HMM TIGR01517"
                     /codon_start=1
                     /transl_table=11
                     /product="ATPase P"
                     /protein_id="YP_001386351.1"
                     /db_xref="GI:153937287"
                     /db_xref="GeneID:5401534"
                     /db_xref="Pathema:CLC_0456"
                     /translation="MWFNKTSQEILEELAVDPSKGLSSEEIEKRREKYGLNKLNSKKQ
                     KSLLKMFFEQLNDILIYILLAAAIISGILGEVSDALIIGIVVIINTVIGVVQESKAEK
                     ALDALKQLSTPKALVKRNGENIEIPSEDVVPGDVIVLDAGRYVPCDLRLIETANLKIE
                     ESALTGESVPVEKHAKEKLEDPKTPLGDQKNMAFMSTLATYGRGIGIAVGTGMNTEIG
                     KIAKMLEGEDKELTPLQKKLAELGKILGFAALGICALMFIIALFQKRDILEMFLTAIS
                     LAVAAIPEGLPTIVTIVLAMGVQKMIKENAIIRKLPAVETLGAVNIICSDKTGTLTQN
                     KMTVIKFYANKEMQDIDKLNIEDSIHKMLLENLVLCNDATFSKDSSTGDPTEIALLEA
                     GAKYNIIKNNIENEHKRIDEIPFDSDRKLMTTVNNFDDKNYVMTKGAIDNLLKISTNA
                     YINGEVVPLTDEIKQNIMNASNEMSKNALRVLGAAYKTLEDNNYNKESLESNLTFIGL
                     VGMIDPPRESVKDSIFECKNSGIKTIMITGDHKITAFAIAKELGIAEDESQAIFGYEL
                     DDMSDTELSSKIENLRVFARVSPEHKVKIVKALKSKGNIVSMTGDGVNDAPSLKAADI
                     GVAMGITGTDVAKGASDMVLTDDNFSTIVSAIKEGRNIYNNIKKSIIFLLSCNLGEIL
                     ALFIGILLGWPSPLRPIHLLWVNLITDSLPALSLGIDPGDPDIMDEKPRNPKESLFAG
                     GAGISLILNGLLIGTLTLVAFEVGRIRYSDSLMHAQTMAFVVLSVSQLFHSLNMRHPK
                     KSIFQLGLFTNKYLLASVIFGIFLQEMVITIPFLASIFKVFDLTMQDWIFVFALSIIP
                     LVINEIVKFFKRLKNK"
     misc_feature    complement(<457913..458080)
                     /locus_tag="CLC_0456"
                     /note="Cation transporter/ATPase, N-terminus; Region:
                     Cation_ATPase_N; pfam00690"
                     /db_xref="CDD:201397"
     misc_feature    complement(455480..458074)
                     /locus_tag="CLC_0456"
                     /note="Cation transport ATPase [Inorganic ion transport
                     and metabolism]; Region: MgtA; COG0474"
                     /db_xref="CDD:223550"
     misc_feature    complement(457136..457798)
                     /locus_tag="CLC_0456"
                     /note="E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122"
                     /db_xref="CDD:215733"
     misc_feature    complement(456737..456982)
                     /locus_tag="CLC_0456"
                     /note="Putative hydrolase of sodium-potassium ATPase alpha
                     subunit; Region: Hydrolase_like2; pfam13246"
                     /db_xref="CDD:222006"
     misc_feature    complement(<456206..>456352)
                     /locus_tag="CLC_0456"
                     /note="Soluble P-type ATPase [General function prediction
                     only]; Region: COG4087"
                     /db_xref="CDD:226572"
     misc_feature    complement(455486..456007)
                     /locus_tag="CLC_0456"
                     /note="Cation transporting ATPase, C-terminus; Region:
                     Cation_ATPase_C; pfam00689"
                     /db_xref="CDD:216063"
     gene            complement(458377..458913)
                     /locus_tag="CLC_0457"
                     /db_xref="GeneID:5399422"
                     /db_xref="Pathema:CLC_0457"
     CDS             complement(458377..458913)
                     /locus_tag="CLC_0457"
                     /note="identified by match to protein family HMM PF02417"
                     /codon_start=1
                     /transl_table=11
                     /product="chromate transporter protein"
                     /protein_id="YP_001386352.1"
                     /db_xref="GI:153934566"
                     /db_xref="GeneID:5399422"
                     /db_xref="Pathema:CLC_0457"
                     /translation="MKALLELFFSFLKIGMFSFGGGYAMLPLIEREIVHNKHWINYKS
                     FIDIIGISQMTPGPIAINSATFVGYKVAGFKGSLVATLGVITFSFILVTIATHFIIKF
                     KESNILKSALMGMRPVLIGLIIYAFLNLASQSYVDLKSIIIGIITFILLLSKKIHPIL
                     IIVISGLLGIIFYGLIPF"
     misc_feature    complement(<458521..458904)
                     /locus_tag="CLC_0457"
                     /note="Chromate transporter; Region: Chromate_transp;
                     pfam02417"
                     /db_xref="CDD:217024"
     gene            complement(458913..459449)
                     /locus_tag="CLC_0458"
                     /db_xref="GeneID:5401118"
                     /db_xref="Pathema:CLC_0458"
     CDS             complement(458913..459449)
                     /locus_tag="CLC_0458"
                     /note="identified by match to protein family HMM PF02417"
                     /codon_start=1
                     /transl_table=11
                     /product="chromate transport protein"
                     /protein_id="YP_001386353.1"
                     /db_xref="GI:153935351"
                     /db_xref="GeneID:5401118"
                     /db_xref="Pathema:CLC_0458"
                     /translation="MLKYLKMFWSFFKIGAFTFGGGYAMIPLIEEEVVNKNSWISKED
                     FLDILVISQSFPGALAVNCSTFIGYKINNLPGAILALLGTILPSFFIILCIASFFMQF
                     RNNYYVDLIFKGINGAVPVLVLVAVISLSKSIKKNYINYTIIILTVVLLKFFNMHPVI
                     IILLSGIYGYIFLRKRVK"
     misc_feature    complement(458973..459440)
                     /locus_tag="CLC_0458"
                     /note="Chromate transporter; Region: Chromate_transp;
                     pfam02417"
                     /db_xref="CDD:217024"
     gene            459623..460213
                     /locus_tag="CLC_0459"
                     /db_xref="GeneID:5399294"
                     /db_xref="Pathema:CLC_0459"
     CDS             459623..460213
                     /locus_tag="CLC_0459"
                     /note="identified by match to protein family HMM PF02452"
                     /codon_start=1
                     /transl_table=11
                     /product="PemK family protein"
                     /protein_id="YP_001386354.1"
                     /db_xref="GI:153936976"
                     /db_xref="GeneID:5399294"
                     /db_xref="Pathema:CLC_0459"
                     /translation="MKNLNDMNSEELGKYIKDTENQIHNLLDEYINRVNNKIDKNKNA
                     KTLKEKAYALSKLYKYVEWVNDGIEMNNNVKNRIRIVPKRGEVWTCELGQNIGSEENK
                     IRPVIIIQNDTGNQNGPTTIVVPISNRPKKIAVHISIRNGDFELAKGEKMEITGTVLA
                     EQIRIVSKARLGRHVATLSDKFMQLLDSKIKISLDL"
     misc_feature    459869..460204
                     /locus_tag="CLC_0459"
                     /note="PemK-like protein; Region: PemK; pfam02452"
                     /db_xref="CDD:217045"
     gene            460660..461085
                     /locus_tag="CLC_0460"
                     /db_xref="GeneID:5399241"
                     /db_xref="Pathema:CLC_0460"
     CDS             460660..461085
                     /locus_tag="CLC_0460"
                     /note="identified by match to protein family HMM PF03885"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386355.1"
                     /db_xref="GI:153937760"
                     /db_xref="GeneID:5399241"
                     /db_xref="Pathema:CLC_0460"
                     /translation="MEIKRVGTNSPIQTESKRTIENKKGFSQNFNFARQQKSEQELKK
                     MLDDINKKGNRLAITKCYADVKAYKRMIKEYLKSVLEYMYSVKKDISFWQTQYFITVE
                     TVDEKLQELTEMLLSAEKENLDIAKTIDDITGLVVDIYK"
     misc_feature    460663..461082
                     /locus_tag="CLC_0460"
                     /note="Protein of unknown function (DUF327); Region:
                     DUF327; pfam03885"
                     /db_xref="CDD:217779"
     gene            complement(461291..463207)
                     /gene="nadE"
                     /locus_tag="CLC_0461"
                     /db_xref="GeneID:5400613"
                     /db_xref="Pathema:CLC_0461"
     CDS             complement(461291..463207)
                     /gene="nadE"
                     /locus_tag="CLC_0461"
                     /EC_number="6.3.5.1"
                     /note="catalyzes the formation of nicotinamide adenine
                     dinucleotide (NAD) from nicotinic acid adenine
                     dinucleotide (NAAD) using either ammonia or glutamine as
                     the amide donor and ATP; ammonia-utilizing enzymes include
                     the ones from Bacillus and Escherichia coli while
                     glutamine-utilizing enzymes include the Mycobacterial one;
                     forms homodimers"
                     /codon_start=1
                     /transl_table=11
                     /product="NAD synthetase"
                     /protein_id="YP_001386356.1"
                     /db_xref="GI:153935328"
                     /db_xref="GeneID:5400613"
                     /db_xref="Pathema:CLC_0461"
                     /translation="MNNSQYYIRVSTACPVTNVADIDFNIDNIKKCIDICIEKKSKLI
                     VFPELCITSYTCGELFSQSLLISKALDGIHNICKYSIDKDVLIAIGSPLLYKNSLYNC
                     AVVIFGGKILGIVPKSYLPNYSEFYEKRWFTEGYKIKSERINLPFQENIPFGVNLIFS
                     DKIFKFAFEVCEDLWVTIPPSSYLALMGANIIGNLSASNEIVSKSDYRRNLVASQSGR
                     CLASYVYSSSGVYESSTDLVFSGHLLIGENGSILKENKRFQRENEVITSIIDIDKINS
                     ERLKNVSFTDNSMNMNLELEEITFQFAINDVGDFDRPIDRYPFVPSNEEKRAVRCKEI
                     FNIQTSALAKRLDHTNMKKAVIGISGGLDSTLALLVIAKTFDKLNIPRENIITITMPG
                     FGTTDRTYNNAVSLCKHLNTTLKEINIVDAALQHFKDIGHDKDIHDVTYENVQARERT
                     QILMDIANKEGGLVIGTGDLSELALGWCTYNGDHMSMYSVNCSIPKTLVRYLVRYVAE
                     NEVAKEISEILIDILDTPVSPELLPKDKEGNIVQKTEDIVGPYELHDFFLYYFIRQGA
                     TPDKIKQLAKIAFKDSYDKETIDKWFSYFIRRFFTQQFKRSAVPDGPKVGTISLSPRG
                     DWRMPSDASFNLWK"
     misc_feature    complement(461297..463198)
                     /gene="nadE"
                     /locus_tag="CLC_0461"
                     /note="NAD synthetase; Reviewed; Region: nadE; PRK02628"
                     /db_xref="CDD:235057"
     misc_feature    complement(462347..463183)
                     /gene="nadE"
                     /locus_tag="CLC_0461"
                     /note="Glutamine aminotransferase (GAT, glutaminase)
                     domain of glutamine-dependent NAD synthetases (class 7 and
                     8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570"
                     /db_xref="CDD:143594"
     misc_feature    complement(order(462347..462355,462374..462379,
                     462383..462385,462437..462439,462494..462496,
                     462500..462514,462554..462559,462566..462571,
                     462578..462580,462590..462592,462599..462610,
                     462644..462646,462653..462655,462659..462664,
                     462674..462688,462692..462694,462785..462787,
                     462806..462811,462818..462823,462827..462829,
                     462833..462841,462845..462853,462908..462913,
                     462926..462928,463007..463009,463016..463027,
                     463031..463042,463139..463153))
                     /gene="nadE"
                     /locus_tag="CLC_0461"
                     /note="multimer interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:143594"
     misc_feature    complement(order(462596..462598,462683..462685,
                     462692..462697,462824..462826,462830..462832,
                     462839..462841,462845..462847,462857..462859,
                     463064..463066))
                     /gene="nadE"
                     /locus_tag="CLC_0461"
                     /note="active site"
                     /db_xref="CDD:143594"
     misc_feature    complement(order(462695..462697,462857..462859,
                     463064..463066))
                     /gene="nadE"
                     /locus_tag="CLC_0461"
                     /note="catalytic triad [active]"
                     /db_xref="CDD:143594"
     misc_feature    complement(order(462347..462352,462377..462379,
                     462437..462439,462494..462496,462500..462508,
                     462512..462514,462554..462559,462566..462571,
                     462578..462580,462590..462592,462599..462610,
                     462659..462664,462674..462688,462692..462694,
                     462785..462787,462827..462829,462833..462841,
                     462845..462853))
                     /gene="nadE"
                     /locus_tag="CLC_0461"
                     /note="protein interface 1 [polypeptide binding]; other
                     site"
                     /db_xref="CDD:143594"
     misc_feature    complement(461390..462220)
                     /gene="nadE"
                     /locus_tag="CLC_0461"
                     /note="NAD+ synthase is a homodimer, which catalyzes the
                     final step in de novo nicotinamide adenine dinucleotide
                     (NAD+) biosynthesis, an amide transfer from either ammonia
                     or glutamine to nicotinic acid adenine dinucleotide
                     (NaAD). The conversion of NaAD to NAD...; Region:
                     NAD_synthase; cd00553"
                     /db_xref="CDD:238309"
     misc_feature    complement(order(461390..461392,461396..461398,
                     461729..461734,461741..461758,461765..461770,
                     461831..461836,461840..461848,461852..461860,
                     461864..461869,461876..461878,461888..461890,
                     461936..461941,461948..461953,461960..461971,
                     462173..462178,462185..462187,462194..462199))
                     /gene="nadE"
                     /locus_tag="CLC_0461"
                     /note="homodimer interface [polypeptide binding]; other
                     site"
                     /db_xref="CDD:238309"
     misc_feature    complement(order(461393..461398,461567..461569,
                     461615..461617,461621..461626,461759..461761,
                     461768..461779,461792..461794,461807..461809,
                     461861..461863,461867..461872,461879..461881,
                     461891..461893,462038..462046,462116..462118,
                     462131..462142))
                     /gene="nadE"
                     /locus_tag="CLC_0461"
                     /note="NAD binding pocket [chemical binding]; other site"
                     /db_xref="CDD:238309"
     misc_feature    complement(order(461624..461629,461720..461722,
                     461807..461809,461861..461863,462038..462043,
                     462116..462121,462131..462139))
                     /gene="nadE"
                     /locus_tag="CLC_0461"
                     /note="ATP binding pocket [chemical binding]; other site"
                     /db_xref="CDD:238309"
     misc_feature    complement(order(461624..461626,461792..461794,
                     462119..462121,462131..462133))
                     /gene="nadE"
                     /locus_tag="CLC_0461"
                     /note="Mg binding site [ion binding]; other site"
                     /db_xref="CDD:238309"
     misc_feature    complement(order(461564..461587,461615..461638,
                     462017..462019))
                     /gene="nadE"
                     /locus_tag="CLC_0461"
                     /note="active-site loop [active]"
                     /db_xref="CDD:238309"
     gene            463429..463869
                     /locus_tag="CLC_0462"
                     /db_xref="GeneID:5401599"
                     /db_xref="Pathema:CLC_0462"
     CDS             463429..463869
                     /locus_tag="CLC_0462"
                     /note="identified by match to protein family HMM PF01957"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386357.1"
                     /db_xref="GI:153937348"
                     /db_xref="GeneID:5401599"
                     /db_xref="Pathema:CLC_0462"
                     /translation="MWSNFDIIVWIIIGTAALLLDLATSSFLFVWFTLGAIAALIVQI
                     LGYSMYIQIIVFTLISILCMILGYPMVKKIIKKQENSILSIERNYVGEIFIADKDIRD
                     EGVLKFQGVYWRVTNSGNHIKKGDKVKINSVKGNKIFVKKVEEE"
     misc_feature    463450..463857
                     /locus_tag="CLC_0462"
                     /note="Membrane protein implicated in regulation of
                     membrane protease activity [Posttranslational
                     modification, protein turnover, chaperones / Intracellular
                     trafficking and secretion]; Region: COG1585"
                     /db_xref="CDD:224501"
     gene            463872..464867
                     /locus_tag="CLC_0463"
                     /db_xref="GeneID:5400007"
                     /db_xref="Pathema:CLC_0463"
     CDS             463872..464867
                     /locus_tag="CLC_0463"
                     /note="identified by match to protein family HMM PF01145"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386358.1"
                     /db_xref="GI:153936563"
                     /db_xref="GeneID:5400007"
                     /db_xref="Pathema:CLC_0463"
                     /translation="MAILAIVLLVIILVTFLMSIKVVNTGYVSIVERFGKYHRTLEPG
                     WHIIMPFADFVRKKISTKQQIIDIDPQSVITQDNVKISIDNVIFYKIMNSKDAVYNIE
                     DYKAGITYSTITNMRNIVGNMTLDEVLSGRDKINSKLLEQIDEITDAYGIKILSVEIK
                     NIDPPREIQEAMEKQMRAERDKRAAILQAEGEKQSEIARAEGEKQAKILQSEAEKEAN
                     IRRAEGLRESQLLEAEGKARAIEQIANAESEAIRKVNASIIESGTNEVVIALKQVDAL
                     KEMAKNPANKLILPNETLSSLGSIAAIGDLLNKDSKKDNNIINKMTNKIVNKDNK"
     misc_feature    463926..464786
                     /locus_tag="CLC_0463"
                     /note="Membrane protease subunits, stomatin/prohibitin
                     homologs [Posttranslational modification, protein
                     turnover, chaperones]; Region: HflC; COG0330"
                     /db_xref="CDD:223407"
     misc_feature    463938..464609
                     /locus_tag="CLC_0463"
                     /note="Band_7_stomatin_like: A subgroup of the band 7
                     domain of flotillin (reggie) like proteins similar to
                     stomatin and podicin (two lipid raft-associated integral
                     membrane proteins). Individual proteins of this band 7
                     domain family may cluster to form...; Region:
                     Band_7_stomatin_like; cd03403"
                     /db_xref="CDD:239497"
     gene            465230..466039
                     /locus_tag="CLC_0464"
                     /db_xref="GeneID:5399445"
                     /db_xref="Pathema:CLC_0464"
     CDS             465230..466039
                     /locus_tag="CLC_0464"
                     /note="identified by match to protein family HMM PF02517"
                     /codon_start=1
                     /transl_table=11
                     /product="CAAX amino terminal protease"
                     /protein_id="YP_001386359.1"
                     /db_xref="GI:153936962"
                     /db_xref="GeneID:5399445"
                     /db_xref="Pathema:CLC_0464"
                     /translation="MDKSEVTESNFELSVLGALAIAMFVVVGFYFFPTPFNMMLETTY
                     VNSNKVLELVLSVLIDLISKGLIIMFILKIIRADIEPSFKIKYIEKFNFKILLCTAFF
                     ILGFFMWFQNSIGTMIIKVLLPKEAIEVAAKDTQNLYQIFILEVIIAPIFEEIVFRGI
                     ILEGLLNKYKPITGIIVSSVVFALCHIYIPQIINAIIFGMLVGIIYYKTRSVVLCMVS
                     HMLTNGFNFLYINSNIRTFFVGAAIFIISGILLEKYIRELKCDGTNISSAG"
     misc_feature    465650..465904
                     /locus_tag="CLC_0464"
                     /note="CAAX protease self-immunity; Region: Abi;
                     pfam02517"
                     /db_xref="CDD:217080"
     gene            466259..467494
                     /gene="pepP"
                     /locus_tag="CLC_0465"
                     /db_xref="GeneID:5399271"
                     /db_xref="Pathema:CLC_0465"
     CDS             466259..467494
                     /gene="pepP"
                     /locus_tag="CLC_0465"
                     /EC_number="3.4.11.9"
                     /note="identified by match to protein family HMM PF00557;
                     match to protein family HMM PF05195"
                     /codon_start=1
                     /transl_table=11
                     /product="xaa-pro aminopeptidase"
                     /protein_id="YP_001386360.1"
                     /db_xref="GI:153935762"
                     /db_xref="GeneID:5399271"
                     /db_xref="Pathema:CLC_0465"
                     /translation="MNKEFFMRNRKNLGESIEEGIIVIFAGKAPYKSADETYPFTPNR
                     NFYYLTGIEEEQIILVITKKNKKIKEHLYIQRPDPVMARWVGATISEEEAEEVSGIEN
                     IGYVDKFFDDFPIFINRSGSNKVYLDLERREWEENFTPAQIFAKELREKYPYVKIENI
                     YKGISDLRTIKSKEEVELIKKAIDITKEGIYNMMKNIKPNMMEYEVEAYFDFSLKKNG
                     VTDYAFETIAAAGKNATVLHYSENNCKIENNSLILCDLGAQHKYYNGDITRTFPANGK
                     FTERQKEVYKVVLEANKAIIQNAKPGVTFKEIEDITKKILTEGCKKLGILQDKKELRK
                     YYFHSFGHYLGLDTHDVGSYEVKLKPGMVITNEPGLYIEEESIGIRIEDDLLITEDGC
                     EVLSKDIIKSIEEIENFMK"
     misc_feature    466259..466666
                     /gene="pepP"
                     /locus_tag="CLC_0465"
                     /note="Aminopeptidase P, N-terminal domain; Region: AMP_N;
                     smart01011"
                     /db_xref="CDD:198079"
     misc_feature    466361..467443
                     /gene="pepP"
                     /locus_tag="CLC_0465"
                     /note="Xaa-Pro aminopeptidase [Amino acid transport and
                     metabolism]; Region: PepP; COG0006"
                     /db_xref="CDD:223085"
     misc_feature    466784..467443
                     /gene="pepP"
                     /locus_tag="CLC_0465"
                     /note="Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro
                     dipeptidase, X-Pro dipeptidase, proline dipeptidase.,
                     imidodipeptidase, peptidase D, gamma-peptidase. Catalyses
                     hydrolysis of Xaa-Pro dipeptides; also acts on
                     aminoacyl-hydroxyproline analogs. No action on...; Region:
                     Prolidase; cd01087"
                     /db_xref="CDD:238520"
     misc_feature    order(466970..466972,467021..467023,467054..467056,
                     467282..467284,467357..467359,467402..467404)
                     /gene="pepP"
                     /locus_tag="CLC_0465"
                     /note="active site"
                     /db_xref="CDD:238520"
     gene            complement(468135..468863)
                     /locus_tag="CLC_0466"
                     /db_xref="GeneID:5398255"
                     /db_xref="Pathema:CLC_0466"
     CDS             complement(468135..468863)
                     /locus_tag="CLC_0466"
                     /note="identified by match to protein family HMM PF07685"
                     /codon_start=1
                     /transl_table=11
                     /product="CobB/CobQ family glutamine amidotransferase"
                     /protein_id="YP_001386361.1"
                     /db_xref="GI:153934646"
                     /db_xref="GeneID:5398255"
                     /db_xref="Pathema:CLC_0466"
                     /translation="MELNICHLYPDLLNVYGDIGNILVLKYRAEQRGIKINVSNVSIK
                     DSFPIDKYDIALFGGGQDYEQSIVSKDMLETKKDDLTKYIEKGKVLLAICGGYQLLGK
                     YYTTPEGEKLDGLDILDIYTEGGDIRFIGNTVIKNEEFNETYVGFENHSGRTYIGNLK
                     PLGKVIAGYGNNGEDQEEGCIYKSTFCTYFHGSLLSKNPELADRLLSTALKNKYGEDI
                     NLEPLDDNLEIKAKEFIIHRESKA"
     misc_feature    complement(468246..468833)
                     /locus_tag="CLC_0466"
                     /note="Type 1 glutamine amidotransferase (GATase1) domain
                     found in Cobyric Acid Synthase (CobQ); Region:
                     GATase1_CobQ; cd01750"
                     /db_xref="CDD:153221"
     misc_feature    complement(order(468408..468410,468414..468416,
                     468582..468584))
                     /locus_tag="CLC_0466"
                     /note="catalytic triad [active]"
                     /db_xref="CDD:153221"
     gene            complement(468921..470282)
                     /locus_tag="CLC_0467"
                     /db_xref="GeneID:5398449"
                     /db_xref="Pathema:CLC_0467"
     CDS             complement(468921..470282)
                     /locus_tag="CLC_0467"
                     /note="identified by match to protein family HMM PF08245;
                     match to protein family HMM PF08353"
                     /codon_start=1
                     /transl_table=11
                     /product="UDP-N-acetylmuramyl tripeptide synthetase-like
                     protein"
                     /protein_id="YP_001386362.1"
                     /db_xref="GI:153937855"
                     /db_xref="GeneID:5398449"
                     /db_xref="Pathema:CLC_0467"
                     /translation="MCKINIKSFFSIIISKMVLKLSKTLFKGGTNFPGKVALKLDKKI
                     LKTVAKDYKVILVTGTNGKTTTTSMIYNMIKDSNKFVISNSTGANMFPGIVACFVENF
                     SFNNKEEKYAVIEVDEANVKFITEYVSPEIITITNLFRDQLDRYGEVYTTLKKILEGI
                     EKSPNSKLILNGDESLLGDLNNSLPNKVLYYGFSHFKNADTVIDVNADSKFCKKCKHP
                     YSYEFLTYNHLGSYYCENCGYKRPNITFSLDEVEDLTPEGSLVIIDNQEYYINQPGLY
                     NVYNALCAYSMAKTLGIEKSIIFNSLKSQKSSFGRQESINIEGKDVKIILVKNPAGYD
                     QAINTIVLDKKKLNLALLLNDNYADGRDVSWIWDVKFEKLKSLDIDNILISGVRLYDM
                     AIRLKIAGLPNEKFKISQNHDDLLEDIKSCREETVYILATYTAMTSFRKFLNSKGYIK
                     KLW"
     misc_feature    complement(468924..470207)
                     /locus_tag="CLC_0467"
                     /note="UDP-N-acetylmuramyl tripeptide synthase [Cell
                     envelope biogenesis, outer membrane]; Region: MurE;
                     COG0769"
                     /db_xref="CDD:223840"
     misc_feature    complement(469602..470081)
                     /locus_tag="CLC_0467"
                     /note="Mur ligase middle domain; Region: Mur_ligase_M;
                     pfam08245"
                     /db_xref="CDD:219763"
     misc_feature    complement(468975..469307)
                     /locus_tag="CLC_0467"
                     /note="Domain of unknown function (DUF1727); Region:
                     DUF1727; pfam08353"
                     /db_xref="CDD:219807"
     gene            470547..471527
                     /gene="manA"
                     /locus_tag="CLC_0468"
                     /db_xref="GeneID:5399095"
                     /db_xref="Pathema:CLC_0468"
     CDS             470547..471527
                     /gene="manA"
                     /locus_tag="CLC_0468"
                     /EC_number="5.3.1.8"
                     /note="identified by match to protein family HMM PF01238"
                     /codon_start=1
                     /transl_table=11
                     /product="mannose-6-phosphate isomerase"
                     /protein_id="YP_001386363.1"
                     /db_xref="GI:153936592"
                     /db_xref="GeneID:5399095"
                     /db_xref="Pathema:CLC_0468"
                     /translation="MYPLKFENIYLNKVWGGRGLKKFRDNLPKGDIGESWDIAFHQDL
                     ISVIKNGKLKGKTLKDAIELYKNKLMGDCIFDKYKDFPLLLKIISAEKKLSIQVHPGE
                     KDFLDLKESPKKEAWYVMEAKVGSYIILGSKIKDKTVLKQVIDDGTVEDYLYKVPVKK
                     GDIFYIDSGMIHAIGKGVTLIEIQQNSDTTYRLYDYNRGRKLDLEKGMNCVNLDIKPN
                     KKSGLKVQLKNCNKTYCFLSEAFAMEKYEVYYFLKEKSDKERFFIFTCVDGQGQINYG
                     EGRQNLSRGDSILIPAYMGDYTLRGNMNLLKFYIPDIEKSINSIVNIIKC"
     misc_feature    470547..471482
                     /gene="manA"
                     /locus_tag="CLC_0468"
                     /note="Phosphomannose isomerase [Carbohydrate transport
                     and metabolism]; Region: ManA; COG1482"
                     /db_xref="CDD:224399"
     misc_feature    470568..471449
                     /gene="manA"
                     /locus_tag="CLC_0468"
                     /note="Alpha-Mannosidase Binding Domain of Atg19/34;
                     Region: ABD; cl15429"
                     /db_xref="CDD:246961"
     gene            471876..472991
                     /locus_tag="CLC_0469"
                     /db_xref="GeneID:5401517"
                     /db_xref="Pathema:CLC_0469"
     CDS             471876..472991
                     /locus_tag="CLC_0469"
                     /codon_start=1
                     /transl_table=11
                     /product="lipoprotein"
                     /protein_id="YP_001386364.1"
                     /db_xref="GI:153935517"
                     /db_xref="GeneID:5401517"
                     /db_xref="Pathema:CLC_0469"
                     /translation="MYRKKLNLKTVCAFILILFINILLISCKGGSSNKGIIVEKWDNF
                     YEGNNIHFYYSDGKSPNSQQLKSKYSLDKLTSKGKDDLDKALEITSWLNNKLKFSKNS
                     IKTEEDTLTILEKYKEGETVSDKEFNEIFTEAISSVGIYSRIGEFRVKDAQHSKKNDF
                     FMVSEIWSDKYKKWIMIDVVNSCYMSKAGVPLSAIEILNNGISGLEINEVKDKNKYIK
                     KMERYFYSYTIGIDNNIHDGVKSNSYITYIQSGQLPELKTIKGYIKPTIFVNNDSLFT
                     ISPKIEYKDLQNDKKPTLIISKKNIEGKEEETPSFYVASFKDSVMVTEFYISVNGADF
                     GKVNTIFELKLKEGQNSIKLSENGKDAVREVIVNYKK"
     gene            473099..473953
                     /locus_tag="CLC_0470"
                     /db_xref="GeneID:5400772"
                     /db_xref="Pathema:CLC_0470"
     CDS             473099..473953
                     /locus_tag="CLC_0470"
                     /note="phosphatase activity in Escherichia coli not
                     kinase; involved in bacitracin resistance as bacitracin
                     supposedly sequesters undecaprenyl disphosphate which
                     reduces the pool of lipid carrier available to the cell"
                     /codon_start=1
                     /transl_table=11
                     /product="undecaprenyl pyrophosphate phosphatase"
                     /protein_id="YP_001386365.1"
                     /db_xref="GI:153936387"
                     /db_xref="GeneID:5400772"
                     /db_xref="Pathema:CLC_0470"
                     /translation="MLLILKAIIIGIVEGITEFLPVSSTGHMIIAGSLIGFDGTVYRK
                     AYTDMFSVVIQLGAILAVVVLYWDKIISTLKNFFPSDRVPVKKCGLKFWINIVIASIP
                     AAVIGIPFNDKIEEKLFYPLPVTIALIVGAIWMIYAENRYRNNSKVISIDDVNAKQAI
                     IIGVFQCLALWPGMSRSASTIIGAWIVGLSTVAAAEFSFFLAIPAMIGASGMSLIKHN
                     VFSTCSSIELIALAAGFIVSFVVALVVIDKFIAFLKKKPMKVFAIYRIVLGIVLIILI
                     YTNIITWH"
     misc_feature    473102..473893
                     /locus_tag="CLC_0470"
                     /note="undecaprenyl pyrophosphate phosphatase; Reviewed;
                     Region: PRK12554"
                     /db_xref="CDD:237134"
     gene            474363..475864
                     /gene="rrsG"
                     /locus_tag="CLC_0471"
                     /db_xref="GeneID:5401460"
                     /db_xref="Pathema:CLC_0471"
     rRNA            474363..475864
                     /gene="rrsG"
                     /locus_tag="CLC_0471"
                     /product="16S ribosomal RNA"
                     /db_xref="GeneID:5401460"
                     /db_xref="Pathema:CLC_0471"
     gene            476008..476083
                     /locus_tag="CLC_0472"
                     /db_xref="GeneID:5400621"
     tRNA            476008..476083
                     /locus_tag="CLC_0472"
                     /product="tRNA-Ala"
                     /db_xref="GeneID:5400621"
     gene            476089..476165
                     /locus_tag="CLC_0474"
                     /db_xref="GeneID:5400796"
     tRNA            476089..476165
                     /locus_tag="CLC_0474"
                     /product="tRNA-Ile"
                     /db_xref="GeneID:5400796"
     gene            476239..479140
                     /gene="rrlG"
                     /locus_tag="CLC_0477"
                     /db_xref="GeneID:5400572"
                     /db_xref="Pathema:CLC_0477"
     rRNA            476239..479140
                     /gene="rrlG"
                     /locus_tag="CLC_0477"
                     /product="23S ribosomal RNA"
                     /db_xref="GeneID:5400572"
                     /db_xref="Pathema:CLC_0477"
     gene            479273..479389
                     /gene="rrfG"
                     /locus_tag="CLC_0478"
                     /db_xref="GeneID:5401420"
                     /db_xref="Pathema:CLC_0478"
     rRNA            479273..479389
                     /gene="rrfG"
                     /locus_tag="CLC_0478"
                     /product="5S ribosomal RNA"
                     /db_xref="GeneID:5401420"
                     /db_xref="Pathema:CLC_0478"
     gene            479398..479472
                     /locus_tag="CLC_0479"
                     /db_xref="GeneID:5399324"
     tRNA            479398..479472
                     /locus_tag="CLC_0479"
                     /product="tRNA-Asn"
                     /db_xref="GeneID:5399324"
     gene            complement(479686..480549)
                     /locus_tag="CLC_0481"
                     /db_xref="GeneID:5401428"
                     /db_xref="Pathema:CLC_0481"
     CDS             complement(479686..480549)
                     /locus_tag="CLC_0481"
                     /note="identified by match to protein family HMM PF00753"
                     /codon_start=1
                     /transl_table=11
                     /product="metallo-beta-lactamase"
                     /protein_id="YP_001386366.1"
                     /db_xref="GI:153937338"
                     /db_xref="GeneID:5401428"
                     /db_xref="Pathema:CLC_0481"
                     /translation="MKLKKKNLIITCLLIFLSIVFTACSQQSSNAVNTSNKSNELKVH
                     YIDVGQGDSILVQTKDKNILIDAGTRKNSDNLISYLKKQHIKKLDYVIATHPHEDHIG
                     GMPKVIEEFEISNFYAPKKTANTKIFKDMILQLKKKNLKINVAKKGISLNLSNNSSLD
                     FLAPVKDNYENTNDSSAVVKLTHGNTKFLFTGDAEKTSEKDILNSNEDLSSNVLKVGH
                     HGSHSSSSKEFLDKINPKIAIISCGKNNDYGHPHKETMKELNKRNIEVYRTDIDGNIV
                     LTSDGENIKKN"
     misc_feature    complement(479695..480531)
                     /locus_tag="CLC_0481"
                     /note="Predicted hydrolase (metallo-beta-lactamase
                     superfamily) [General function prediction only]; Region:
                     ComEC; COG2333"
                     /db_xref="CDD:225212"
     misc_feature    complement(<480181..480411)
                     /locus_tag="CLC_0481"
                     /note="Metallo-beta-lactamase superfamily; Region:
                     Lactamase_B; pfam00753"
                     /db_xref="CDD:216099"
     gene            480686..481408
                     /locus_tag="CLC_0482"
                     /db_xref="GeneID:5400529"
                     /db_xref="Pathema:CLC_0482"
     CDS             480686..481408
                     /locus_tag="CLC_0482"
                     /note="identified by match to protein family HMM PF01553;
                     match to protein family HMM TIGR00530"
                     /codon_start=1
                     /transl_table=11
                     /product="1-acyl-sn-glycerol-3-phosphate acyltransferase"
                     /protein_id="YP_001386367.1"
                     /db_xref="GI:153934628"
                     /db_xref="GeneID:5400529"
                     /db_xref="Pathema:CLC_0482"
                     /translation="MKSLIFYLGFALYMLLSLLRIIKLKHLKRKGNKEEIDRYINKSV
                     VGWAKFIVNGIGIKINKKGLENVPDGPCLFVGNHQGLLDVPVIVSSLDRYVGFVAKKE
                     MLKLKILTYWMKEMKCVFMDRQNVRAAVKTINEGVENLKNGYSMLIFPEGTRSRGENL
                     GEFKKGSMKLGIKAGVPIVPIAIDGTYNVLEANGKKIKAADVDLIICPPIYPNELSKE
                     EQNNLSVTIKDVIQKELERTRN"
     misc_feature    480785..481399
                     /locus_tag="CLC_0482"
                     /note="1-acyl-sn-glycerol-3-phosphate acyltransferase
                     [Lipid metabolism]; Region: PlsC; COG0204"
                     /db_xref="CDD:223282"
     misc_feature    480827..481348
                     /locus_tag="CLC_0482"
                     /note="Lysophospholipid Acyltransferases (LPLATs) of
                     Glycerophospholipid Biosynthesis: AGPAT-like; Region:
                     LPLAT_AGPAT-like; cd07989"
                     /db_xref="CDD:153251"
     misc_feature    order(480917..480919,480926..480928,480932..480934,
                     480980..480991,481139..481147)
                     /locus_tag="CLC_0482"
                     /note="putative acyl-acceptor binding pocket; other site"
                     /db_xref="CDD:153251"
     gene            482153..483514
                     /locus_tag="CLC_0483"
                     /db_xref="GeneID:5400888"
                     /db_xref="Pathema:CLC_0483"
     CDS             482153..483514
                     /locus_tag="CLC_0483"
                     /note="identified by match to protein family HMM PF00682"
                     /codon_start=1
                     /transl_table=11
                     /product="HMGL-related enzyme"
                     /protein_id="YP_001386368.1"
                     /db_xref="GI:153935335"
                     /db_xref="GeneID:5400888"
                     /db_xref="Pathema:CLC_0483"
                     /translation="MMVKIVKSSYNHVLQNISSPNLYKDLFPYDEIPKVTFNDIQVPM
                     DLPKDIWITDTTFRDGQQSMPPYTTEQIVKIYDYLHKLDNESGVIRQTEFFLYSEKDR
                     KAAEICLDRGYKFPEVTSWIRASKEDFKLVKEMGIKETGMLMSCSDYHIFKKLNTTRE
                     KAMSMYLEIAEEALANGIVPRCHLEDITRADFYGFVVPFVNKLMELSNKANIPIKIRA
                     CDTLGLGVPYSGASLPRSVQGIIHGLRYCCNVPSERIEWHGHNDFYGVVANASTSWLY
                     GCSSVNTSLLGIGERTGNCPLEAMIIEYGQLKGNTANMNLHVINEIAEYFEREMNYNI
                     PSRTPFVGSEFNVTRAGIHADGILKNEEIYNIFNTEKILDRPVVVAVNQYSGLAGIAA
                     WINTYFKLKGENKIDKKDERIVAIKEWVDNQYENGRTTIIGNNELEVIVKQLIPDLFR
                     RAS"
     misc_feature    482300..483418
                     /locus_tag="CLC_0483"
                     /note="isopropylmalate/citramalate/homocitrate synthases;
                     Region: LEU1_arch; TIGR02090"
                     /db_xref="CDD:233719"
     misc_feature    482300..483136
                     /locus_tag="CLC_0483"
                     /note="Clostridium kluyveri Re-citrate synthase and
                     related proteins, catalytic TIM barrel domain; Region:
                     DRE_TIM_Re_CS; cd07947"
                     /db_xref="CDD:163684"
     misc_feature    order(482324..482329,482336..482338,482429..482431,
                     482513..482515,482519..482521,482705..482707,
                     482807..482809,482924..482926,482930..482932)
                     /locus_tag="CLC_0483"
                     /note="active site"
                     /db_xref="CDD:163684"
     misc_feature    order(482324..482329,482429..482431)
                     /locus_tag="CLC_0483"
                     /note="catalytic residues [active]"
                     /db_xref="CDD:163684"
     misc_feature    order(482327..482329,482807..482809,482924..482926,
                     482930..482932)
                     /locus_tag="CLC_0483"
                     /note="metal binding site [ion binding]; metal-binding
                     site"
                     /db_xref="CDD:163684"
     gene            483658..485583
                     /locus_tag="CLC_0484"
                     /db_xref="GeneID:5399321"
                     /db_xref="Pathema:CLC_0484"
     CDS             483658..485583
                     /locus_tag="CLC_0484"
                     /note="Catalyzes the conversion of citrate to isocitrate"
                     /codon_start=1
                     /transl_table=11
                     /product="aconitate hydratase"
                     /protein_id="YP_001386369.1"
                     /db_xref="GI:153937020"
                     /db_xref="GeneID:5399321"
                     /db_xref="Pathema:CLC_0484"
                     /translation="MGLTLTEKIIKSHLVKGNMTKGEEIAIKIDNTLTQDSTGTMAYL
                     QFEALGIDKVKTKRSVAYIDHNMLQSGPENADDHLYIQTVAKKHGIYFSKPGNGICHQ
                     VNLERFGVPGETLLGSDSHTPTGGGIGMLAIGAGGLDVAVAMAGGEYYINMPKVVKVN
                     LIGKLKPFVSAKDIILEVLRRLSVKGGVGKIFEYTGEGVKALTVPERATITNMGAELG
                     ATTSIFPSDEITKDFLKAQEREEDYKYLVADEDAFYDEELEINLSDLKPLAACPHSPD
                     NIVPVSELKNIKVNQVAIGSCTNSSYRDMLRTASILKGKTVSENVSLVIAPGSKQVLN
                     MMANNGALTDLVMAGARILECACGPCIGMGQSPCTDAVSLRTFNRNFEGRSGTKSADV
                     YLVSPEVAAVSALTGYITDPTELTDFEDIEMPNKFLINDNLIIEPATEGEVVEVKRGP
                     NIKPFPKAEALKELVTGKALTKVGDNITTDHIMPSNAKLLPYRSNVPYLSNFCLTPCD
                     EKFPEKAKENGGGIIVAGTNYGQGSSREHAALAPVYLGIKAVLAKSFARIHKANLINN
                     GILPLVFEREEDYDSIDEMDELVIENVLNQVEIGKIDIINKTKSIKYKTLLEATDRQK
                     KMILKGGLLNLIKSSQQ"
     misc_feature    483658..485580
                     /locus_tag="CLC_0484"
                     /note="aconitate hydratase; Validated; Region: PRK07229"
                     /db_xref="CDD:235974"
     misc_feature    483745..484884
                     /locus_tag="CLC_0484"
                     /note="Aconitase catalyzes the reversible isomerization of
                     citrate and isocitrate as part of the TCA cycle; Region:
                     AcnA_Bact; cd01585"
                     /db_xref="CDD:153135"
     misc_feature    order(483760..483762,483769..483771,484012..484017,
                     484738..484740,484792..484794,484807..484809)
                     /locus_tag="CLC_0484"
                     /note="substrate binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:153135"
     misc_feature    order(484018..484020,484546..484548,484726..484728,
                     484735..484740,484789..484791)
                     /locus_tag="CLC_0484"
                     /note="ligand binding site [chemical binding]; other site"
                     /db_xref="CDD:153135"
     misc_feature    485071..485433
                     /locus_tag="CLC_0484"
                     /note="Aconitase swivel domain. Aconitase (aconitate
                     hydratase) catalyzes the reversible isomerization of
                     citrate and isocitrate as part of the TCA cycle. This is
                     the aconitase swivel domain, which undergoes swivelling
                     conformational change in the enzyme...; Region:
                     Aconitase_swivel; cl00215"
                     /db_xref="CDD:241693"
     misc_feature    485254..485262
                     /locus_tag="CLC_0484"
                     /note="substrate binding site [chemical binding]; other
                     site"
                     /db_xref="CDD:238236"
     gene            485619..486617
                     /locus_tag="CLC_0485"
                     /db_xref="GeneID:5400118"
                     /db_xref="Pathema:CLC_0485"
     CDS             485619..486617
                     /locus_tag="CLC_0485"
                     /note="identified by match to protein family HMM PF00180"
                     /codon_start=1
                     /transl_table=11
                     /product="isocitrate/isopropylmalate family dehydrogenase"
                     /protein_id="YP_001386370.1"
                     /db_xref="GI:153937746"
                     /db_xref="GeneID:5400118"
                     /db_xref="Pathema:CLC_0485"
                     /translation="MKHNITLIPGDGIGPEVTEAARKVIDAVGADINWHVVEAGEKVL
                     DKYKTPLPDYVLDSIKGTKVALKGPVTTPVGKGFRSVNVTLRKSLNLYANIRPVKSYK
                     GIKSRYENVDLIIVRENTEDLYAGIEHMIGDDIAESIKVITKKASDRIVDYAFDMARK
                     ENRNKVTAVHKANIMKLSDGLFLNCAKEVASKNKDIDFEDVIVDAMAMKLVLNPEKYD
                     VLVMPNLYGDILSDMAAGLVGGLGLLPGANIGYEGAVFEAAHGAAPDIAGKNKANPTA
                     CILSGAMMLNYIGENEKAKKIENAIEKVFVEGKYLTEDLGGSSTTEEFTKAIIENL"
     misc_feature    485619..486614
                     /locus_tag="CLC_0485"
                     /note="Isocitrate/isopropylmalate dehydrogenase [Amino
                     acid transport and metabolism]; Region: LeuB; COG0473"
                     /db_xref="CDD:223549"
     misc_feature    485619..486614
                     /locus_tag="CLC_0485"
                     /note="tartrate dehydrogenase; Region: TTC; TIGR02089"
                     /db_xref="CDD:233718"
     gene            486869..487651
                     /locus_tag="CLC_0486"
                     /db_xref="GeneID:5401691"
                     /db_xref="Pathema:CLC_0486"
     CDS             486869..487651
                     /locus_tag="CLC_0486"
                     /note="identified by match to protein family HMM PF00005"
                     /codon_start=1
                     /transl_table=11
                     /product="polar amino acid ABC transporter ATP-binding
                     protein"
                     /protein_id="YP_001386371.1"
                     /db_xref="GI:153936994"
                     /db_xref="GeneID:5401691"
                     /db_xref="Pathema:CLC_0486"
                     /translation="MEKSLIIDDYNKMIDKEEFMIETKNIKKTFGNLMVFEDLNLKIK
                     KGEVVVIIGSSGSGKSTFLRCLNALEEINDGIIEIEGKILNSKDKKSMKELCSKMGMV
                     FQNFNLFPHMTALDNVMIGPLVSKKENKEKVLKIAKNLLKKVGLEDKMDYYPSKLSGG
                     QKQRVAIARALAMNPDIMLFDEPTSALDPELVGEVLSVMKKLAEEGITMVVVTHEMGF
                     AKEVADRVIFMDGGKFVEEASPDVFFTCPKEERTKEFLKKVL"
     misc_feature    486926..487648
                     /locus_tag="CLC_0486"
                     /note="ABC-type polar amino acid transport system, ATPase
                     component [Amino acid transport and metabolism]; Region:
                     GlnQ; COG1126"
                     /db_xref="CDD:224051"
     misc_feature    486929..487567
                     /locus_tag="CLC_0486"
                     /note="ATP-binding cassette domain of the histidine and
                     glutamine transporters; Region: ABC_HisP_GlnQ; cd03262"
                     /db_xref="CDD:213229"
     misc_feature    487025..487048
                     /locus_tag="CLC_0486"
                     /note="Walker A/P-loop; other site"
                     /db_xref="CDD:213229"
     misc_feature    order(487034..487039,487043..487051,487178..487180,
                     487409..487414,487508..487510)
                     /locus_tag="CLC_0486"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:213229"
     misc_feature    487169..487180
                     /locus_tag="CLC_0486"
                     /note="Q-loop/lid; other site"
                     /db_xref="CDD:213229"
     misc_feature    487337..487366
                     /locus_tag="CLC_0486"
                     /note="ABC transporter signature motif; other site"
                     /db_xref="CDD:213229"
     misc_feature    487397..487414
                     /locus_tag="CLC_0486"
                     /note="Walker B; other site"
                     /db_xref="CDD:213229"
     misc_feature    487421..487432
                     /locus_tag="CLC_0486"
                     /note="D-loop; other site"
                     /db_xref="CDD:213229"
     misc_feature    487496..487516
                     /locus_tag="CLC_0486"
                     /note="H-loop/switch region; other site"
                     /db_xref="CDD:213229"
     gene            488170..489936
                     /locus_tag="CLC_0487"
                     /db_xref="GeneID:5399723"
                     /db_xref="Pathema:CLC_0487"
     CDS             488170..489936
                     /locus_tag="CLC_0487"
                     /note="identified by match to protein family HMM PF03553;
                     match to protein family HMM PF03606"
                     /codon_start=1
                     /transl_table=11
                     /product="Na+/H+ antiporter family protein"
                     /protein_id="YP_001386372.1"
                     /db_xref="GI:153937612"
                     /db_xref="GeneID:5399723"
                     /db_xref="Pathema:CLC_0487"
                     /translation="MKKNRGVLLTFSFVLMILLFNNMSVLAADLDPKVVAENASRLGI
                     WTILPPVIAIVLAFITKNVVISLALGVFSGSFLLQLNGNNIFGASFKAFLDFINRILN
                     SLADPWNAGIILQCMVIGGLIAVISKMGGAKAVAESLAKKARTPKSAQIITWFLGLLV
                     FFDDYANALIVGPIMRPVADKMKISREKLAFIIDGTAAPIAGIAVISTWIGYEISLIK
                     DAYASIGQSVNAYGLFLSTIPYRFYNILILAFIVLIALMGRDFGPMLKAERRARTTGK
                     LLSDTAKPMVSEESTELEPREGIKLNIWNAIIPIAILIIGAFAGFYYNGYQAIMGGED
                     KALIQMLQTSPASFDALRETFSASDASVVLFQSALLASIVAIIMGASQKIFKVGEAID
                     VWITGMKSLIITAVILLLAWSLSAVIKELGTATFLVSILSNSIPKFLLPSIIFILGSV
                     ISFATGSAYGTMGILMPLTIPLAYAISPDPTYVVISVSAVLTGAIFGDHCSPISDTTI
                     MSSMGSACDHLDHTSTQMVYALTVAACTILFGYIPAGLGLPIYIVLPLSIGLVALLIR
                     FVGKPNDIPEEESLEEVLEMDA"
     misc_feature    <488239..488583
                     /locus_tag="CLC_0487"
                     /note="Permease; Region: Permease; cl00510"
                     /db_xref="CDD:241914"
     misc_feature    488767..489783
                     /locus_tag="CLC_0487"
                     /note="Na+/H+ antiporter family; Region: Na_H_antiporter;
                     pfam03553"
                     /db_xref="CDD:217612"
     gene            complement(489963..490178)
                     /locus_tag="CLC_0488"
                     /db_xref="GeneID:5400863"
                     /db_xref="Pathema:CLC_0488"
     CDS             complement(489963..490178)
                     /locus_tag="CLC_0488"
                     /note="identified by match to protein family HMM PF04070"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386373.1"
                     /db_xref="GI:153935017"
                     /db_xref="GeneID:5400863"
                     /db_xref="Pathema:CLC_0488"
                     /translation="MKTLDIISLTLVIIGAINWGLIGFFRFDLVAALFGDMSAFTRVI
                     YALVGIAGLYAISFYGRDRDEEPREEQ"
     misc_feature    complement(489969..490178)
                     /locus_tag="CLC_0488"
                     /note="Uncharacterized conserved protein [Function
                     unknown]; Region: COG2155"
                     /db_xref="CDD:225066"
     gene            complement(490266..490649)
                     /gene="panD"
                     /locus_tag="CLC_0489"
                     /db_xref="GeneID:5400952"
                     /db_xref="Pathema:CLC_0489"
     CDS             complement(490266..490649)
                     /gene="panD"
                     /locus_tag="CLC_0489"
                     /EC_number="4.1.1.11"
                     /note="Converts L-aspartate to beta-alanine and provides
                     the major route of beta-alanine production in bacteria.
                     Beta-alanine is essential for the biosynthesis of
                     pantothenate (vitamin B5)"
                     /codon_start=1
                     /transl_table=11
                     /product="aspartate alpha-decarboxylase"
                     /protein_id="YP_001386374.1"
                     /db_xref="GI:153935836"
                     /db_xref="GeneID:5400952"
                     /db_xref="Pathema:CLC_0489"
                     /translation="MTITMLKSKIHRATVTEANLNYVGSITIDKYLMDKANILEYEKV
                     QIVDIDNGNRFETYVIAGEKHSDVICLNGAAARMVQKGDKIIIMSYCSLTIDEANKFN
                     PTVLFVDNKNNIEKLTNYEKHGEII"
     misc_feature    complement(490314..490643)
                     /gene="panD"
                     /locus_tag="CLC_0489"
                     /note="Aspartate alpha-decarboxylase or L-aspartate
                     1-decarboxylase, a pyruvoyl group-dependent  decarboxylase
                     in beta-alanine production; Region: Asp_decarbox; cd06919"
                     /db_xref="CDD:132994"
     misc_feature    complement(order(490347..490349,490374..490382,
                     490392..490394,490416..490421,490425..490430,
                     490476..490490,490494..490496,490503..490505,
                     490509..490511,490521..490526,490533..490535,
                     490539..490541,490581..490592,490614..490619,
                     490623..490625,490629..490643))
                     /gene="panD"
                     /locus_tag="CLC_0489"
                     /note="tetramerization interface [polypeptide binding];
                     other site"
                     /db_xref="CDD:132994"
     misc_feature    complement(order(490476..490478,490575..490580,
                     490617..490619,490623..490625))
                     /gene="panD"
                     /locus_tag="CLC_0489"
                     /note="active site"
                     /db_xref="CDD:132994"
     gene            complement(490798..491643)
                     /gene="panC"
                     /locus_tag="CLC_0490"
                     /db_xref="GeneID:5398381"
                     /db_xref="Pathema:CLC_0490"
     CDS             complement(490798..491643)
                     /gene="panC"
                     /locus_tag="CLC_0490"
                     /EC_number="6.3.2.1"
                     /note="catalyzes the formation of (R)-pantothenate from
                     pantoate and beta-alanine"
                     /codon_start=1
                     /transl_table=11
                     /product="pantoate--beta-alanine ligase"
                     /protein_id="YP_001386375.1"
                     /db_xref="GI:153934894"
                     /db_xref="GeneID:5398381"
                     /db_xref="Pathema:CLC_0490"
                     /translation="MNIVNTIKDVRLIIKKWKDENLSIGYVPTMGYLHEGHTSLIKKA
                     REENDKVIVSIFVNPIQFGPKEDYSTYPRDLVKDSSLCEKFGVDLIFNPETSEMYPNK
                     IYSHINVDILTENLCGEKRPGHFQGVCTVLTKFFNILNPTKAYLGEKDAQQLAVVKKM
                     VEDLNFPIEIIGCPIIREEDGLAKSSRNAYLNKQERKSALILNKSLKEALKALESGEK
                     NLNNIKDIIVSKLNKEPLAKIDYVSIVDSITLQSVEKIQSSILVAIAVYIGKTRLIDN
                     FTFKL"
     misc_feature    complement(490813..491643)
                     /gene="panC"
                     /locus_tag="CLC_0490"
                     /note="Pantoate-beta-alanine ligase; Region: PanC;
                     cd00560"
                     /db_xref="CDD:185673"
     misc_feature    complement(490816..491643)
                     /gene="panC"
                     /locus_tag="CLC_0490"
                     /note="pantoate--beta-alanine ligase; Region: panC;
                     TIGR00018"
                     /db_xref="CDD:232784"
     misc_feature    complement(order(491083..491094,491116..491124,
                     491185..491187,491194..491199,491203..491208,
                     491248..491253,491260..491262,491431..491433,
                     491461..491463,491470..491472,491524..491526,
                     491533..491538,491542..491544,491551..491562))
                     /gene="panC"
                     /locus_tag="CLC_0490"
                     /note="active site"
                     /db_xref="CDD:185673"
     misc_feature    complement(order(491092..491097,491116..491121,
                     491185..491187,491194..491199,491203..491208,
                     491248..491253,491461..491463,491524..491526,
                     491533..491535,491542..491544,491554..491562))
                     /gene="panC"
                     /locus_tag="CLC_0490"
                     /note="ATP-binding site [chemical binding]; other site"
                     /db_xref="CDD:185673"
     misc_feature    complement(order(491185..491187,491239..491241,
                     491248..491253,491461..491463,491470..491472,
                     491554..491556,491560..491562))
                     /gene="panC"
                     /locus_tag="CLC_0490"
                     /note="pantoate-binding site; other site"
                     /db_xref="CDD:185673"
     misc_feature    complement(491533..491544)
                     /gene="panC"
                     /locus_tag="CLC_0490"
                     /note="HXXH motif; other site"
                     /db_xref="CDD:185673"
     gene            complement(491698..492525)
                     /gene="panB"
                     /locus_tag="CLC_0491"
                     /db_xref="GeneID:5400996"
                     /db_xref="Pathema:CLC_0491"
     CDS             complement(491698..492525)
                     /gene="panB"
                     /locus_tag="CLC_0491"
                     /EC_number="2.1.2.11"
                     /note="catalyzes the formation of tetrahydrofolate and
                     2-dehydropantoate from 5,10-methylenetetrahydrofolate and
                     3-methyl-2-oxobutanoate"
                     /codon_start=1
                     /transl_table=11
                     /product="3-methyl-2-oxobutanoate
                     hydroxymethyltransferase"
                     /protein_id="YP_001386376.1"
                     /db_xref="GI:153937429"
                     /db_xref="GeneID:5400996"
                     /db_xref="Pathema:CLC_0491"
                     /translation="MRNTVSTFQELKNKGEKITMLTAYDYSMAKLIDSSGINGILVGD
                     SLGMVCLGYENTLSVTMEDMLHHTKAVVRGTSNALVVGDMPFMSYQTSIYDAVYNAGR
                     FIKEAGAHAVKLEGGATVAEEIKAIVKAQIPVMGHIGLTPQSVNMFGGFKVQGKNEKV
                     AKKLIEDAKILEEAGAFSIVLECIPEKLSKIISESISIPTIGIGAGKYCDGQILVYQD
                     MLSMFSDFKPKFVKSFGNIGESIKDGVSQYIKEVKEVKFPEEKHAFKIDDDVINKLY"
     misc_feature    complement(491779..492513)
                     /gene="panB"
                     /locus_tag="CLC_0491"
                     /note="Ketopantoate hydroxymethyltransferase (KPHMT) is
                     the first enzyme in the pantothenate biosynthesis pathway.
                     Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes
                     the first committed step in the biosynthesis of
                     pantothenate (vitamin B5), which is a...; Region:
                     KPHMT-like; cd06557"
                     /db_xref="CDD:119342"
     misc_feature    complement(order(491800..491814,491821..491823,
                     491863..491868,491875..491877,491995..491997,
                     492079..492090,492094..492099,492127..492144,
                     492196..492198,492211..492216,492223..492225,
                     492235..492237,492265..492270,492307..492309,
                     492316..492318,492325..492330,492337..492339,
                     492352..492357,492367..492384,492388..492390,
                     492433..492435,492442..492453,492508..492513))
                     /gene="panB"
                     /locus_tag="CLC_0491"
                     /note="oligomerization interface [polypeptide binding];
                     other site"
                     /db_xref="CDD:119342"
     misc_feature    complement(order(491881..491883,491887..491889,
                     491980..491982,492100..492102,492115..492117,
                     492187..492189,492277..492279,492391..492399,
                     492403..492405,492460..492462))
                     /gene="panB"
                     /locus_tag="CLC_0491"
                     /note="active site"
                     /db_xref="CDD:119342"
     misc_feature    complement(order(492187..492189,492277..492279,
                     492394..492396))
                     /gene="panB"
                     /locus_tag="CLC_0491"
                     /note="metal binding site [ion binding]; metal-binding
                     site"
                     /db_xref="CDD:119342"
     gene            493326..496769
                     /gene="addB"
                     /locus_tag="CLC_0492"
                     /db_xref="GeneID:5398383"
                     /db_xref="Pathema:CLC_0492"
     CDS             493326..496769
                     /gene="addB"
                     /locus_tag="CLC_0492"
                     /note="identified by match to protein family HMM
                     TIGR02773"
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-dependent nuclease subunit B"
                     /protein_id="YP_001386377.1"
                     /db_xref="GI:153936482"
                     /db_xref="GeneID:5398383"
                     /db_xref="Pathema:CLC_0492"
                     /translation="MSLRFIYGRAGSGKSQYCLNSIKNRIEEDIDRPLILLVPEQFSF
                     QAEKNLIEVLDEKTGFKTQVLSFKRMAYRVFNEVGGITAKHMNESGKSMLLYNIIEDN
                     KNNLKVFKKAAKRQGFITTISDIITEFKRYNITPEIILNNLENIEGDNLKYKMEDLAL
                     IFSQFETRLHKNYIDNEDDLTILAEKLNKSKQFDNAEIWIDEFSSFSPQEYSVLEKLL
                     LKSYRINITLCTDYLNQGRFVDTTDVFSPIKNTENKLLQIIEDNNIKLDKPIALKCDP
                     CARFKNSAELQHLEKNMFSFPYKEYKNETKDICMLKTLNQFTEIENTAKDIIKLCIDK
                     GCRFKDIAVITGDLEGYENIISSVFLQYNIPFFIDKKREINNNPIIVLILSALEVLSK
                     NWTYESVFRYLKTGLLDINNEEMDILENYVLANGIKGYQWTNDKLWEYKSFSNYELED
                     QVEKELLAKINDIRYKAMEPIVTLNKNFKSIDKAKEFCEVLYEFLCNINLPDKIQNMI
                     EDFKVEGEIEKASEYNQIWNIVMEVLDQIVEVIGEEKISLKEFFKILQTGLSEYEIGL
                     IPPTLDQVMVGSITRLRSHNINTLYIVGVNDGIFPSPLKEEGILSDDDRKFLGDKGLE
                     IAKDTKSIAFEEQFLVYSTLTTPSKYLRLSYPIADGEGKTLRPSIIISRIKKIFTNIC
                     EENDIVKLNGEEEELKNISSAKPTFNYLISNLRKDVEGAKIDNIWGDTYKWYLENEFW
                     IEKLNRLIKGFDYTNQSKYIETKKIRNLYGKPLKISVSRVEKFSQCPFAYFVQYGLKA
                     KDRKIFNLSYPDLGIFMHSILEKFSHELEKQGLEWDTMDLNWAEEEIDKLINEELDNK
                     SLDILNSSKRYEYVTKSVKKILKRSIWLIGEHIKRGNFKPSYYELSFDIDGDYPPIAM
                     ELHSGEVVNLIGRVDRVDLLQKDGATYLKIIDYKSGAKEFKLSDVYYGLQLQLLIYLD
                     AILTELAERSGINGEPGALLYLKLDDPIVKNTVDMSDEEIEKSIIKNLKMKGLILNDP
                     NVIRDMDNIISGISDIIPVMVKKDGGVSEGRSSVATKEEFETLRKYVRYTIIEICEEM
                     LEGNIEIKPYKKKDGSSCDYCIYSSVCKFDTNIRGNKYNILIDKKDEEVWDDIKKKLE
                     C"
     misc_feature    493326..496757
                     /gene="addB"
                     /locus_tag="CLC_0492"
                     /note="helicase-exonuclease AddAB, AddB subunit; Region:
                     addB_Gpos; TIGR02773"
                     /db_xref="CDD:213736"
     misc_feature    495645..496310
                     /gene="addB"
                     /locus_tag="CLC_0492"
                     /note="PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1;
                     pfam12705"
                     /db_xref="CDD:221726"
     gene            complement(497058..498272)
                     /locus_tag="CLC_0493"
                     /db_xref="GeneID:5400342"
                     /db_xref="Pathema:CLC_0493"
     CDS             complement(497058..498272)
                     /locus_tag="CLC_0493"
                     /codon_start=1
                     /transl_table=11
                     /product="ABC transporter permease"
                     /protein_id="YP_001386378.1"
                     /db_xref="GI:153936811"
                     /db_xref="GeneID:5400342"
                     /db_xref="Pathema:CLC_0493"
                     /translation="MLFNLTINELEKIFKKKRILLMLIIFSVVIFMAYLNTFNGFKSS
                     SNKAQLEIKNNEQTLIDTKKQLTDKNLSIQDKKSINNNIESIEINITNLKSLTKAQGN
                     DWKNILHKHISKLEKLKSKISKNNTNQIKSINDKINMDKYWINHDINPNDYNYKFNAT
                     KYMPDILSFFNILFLPILIVLSCSDIISGENNPPTIKFLLSKPISRGKILLSKFIASI
                     ISIVLSLFICEFLAFLIIGIAFKFGSLLSPIVVGFKFKHMQGIRDIVVIGDKSHIIPM
                     WQFIGETLLFQILFVIACVSVSLLISTLAKSSVYSMSINFIIIIMLTFNNLLMITGSG
                     GSPKSGTISRILPFLFTTYSDGVMILTGNINRFTGITFITPKVSILILISWTIICYLI
                     SHLIFTKKDILV"
     misc_feature    complement(<497283..497789)
                     /locus_tag="CLC_0493"
                     /note="ABC-2 family transporter protein; Region:
                     ABC2_membrane_4; pfam12730"
                     /db_xref="CDD:221739"
     misc_feature    complement(497067..>497759)
                     /locus_tag="CLC_0493"
                     /note="ABC-2 family transporter protein; Region:
                     ABC2_membrane_2; pfam12679"
                     /db_xref="CDD:221706"
     gene            complement(498262..498978)
                     /locus_tag="CLC_0494"
                     /db_xref="GeneID:5400497"
                     /db_xref="Pathema:CLC_0494"
     CDS             complement(498262..498978)
                     /locus_tag="CLC_0494"
                     /note="identified by match to protein family HMM PF00005"
                     /codon_start=1
                     /transl_table=11
                     /product="ABC transporter ATP-binding protein"
                     /protein_id="YP_001386379.1"
                     /db_xref="GI:153935822"
                     /db_xref="GeneID:5400497"
                     /db_xref="Pathema:CLC_0494"
                     /translation="MNILEITNLKKHIGKNEIIRNVNLNINKGEILGLLGKNGAGKTT
                     IIRMIVGLMKPTDGTISIMGYNVQENIENALAHVGCIVENPDLYGYMTGRENLIQVSR
                     MYKNINKNQIEKIINNIGLNDHIDKKVKTYSLGMKQRLGLGQTLLSNPKLLILDEPTN
                     GLDPIGIIEFRETIKNIAQDGTAILISSHILSEIQNVCTKVAFINDGEIKSIDKLNDP
                     NLSLEKKFINIIGGGKINAI"
     misc_feature    complement(498331..498969)
                     /locus_tag="CLC_0494"
                     /note="gallidermin-class lantibiotic protection ABC
                     transporter, ATP-binding subunit; Region: galliderm_ABC;
                     TIGR03740"
                     /db_xref="CDD:163452"
     misc_feature    complement(498352..498969)
                     /locus_tag="CLC_0494"
                     /note="ATP-binding cassette transporter nucleotide-binding
                     domain; Region: ABC_ATPase; cl17201"
                     /db_xref="CDD:247755"
     misc_feature    complement(498850..498873)
                     /locus_tag="CLC_0494"
                     /note="Walker A/P-loop; other site"
                     /db_xref="CDD:213179"
     misc_feature    complement(order(498412..498414,498508..498513,
                     498730..498732,498847..498855,498859..498864))
                     /locus_tag="CLC_0494"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:213179"
     misc_feature    complement(498730..498741)
                     /locus_tag="CLC_0494"
                     /note="Q-loop/lid; other site"
                     /db_xref="CDD:213179"
     misc_feature    complement(498556..498585)
                     /locus_tag="CLC_0494"
                     /note="ABC transporter signature motif; other site"
                     /db_xref="CDD:213179"
     misc_feature    complement(498508..498525)
                     /locus_tag="CLC_0494"
                     /note="Walker B; other site"
                     /db_xref="CDD:213179"
     misc_feature    complement(498490..498501)
                     /locus_tag="CLC_0494"
                     /note="D-loop; other site"
                     /db_xref="CDD:213179"
     misc_feature    complement(498406..498426)
                     /locus_tag="CLC_0494"
                     /note="H-loop/switch region; other site"
                     /db_xref="CDD:213179"
     gene            complement(499011..499961)
                     /locus_tag="CLC_0495"
                     /db_xref="GeneID:5398820"
                     /db_xref="Pathema:CLC_0495"
     CDS             complement(499011..499961)
                     /locus_tag="CLC_0495"
                     /note="identified by similarity to GB:AAS44016.1"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386380.1"
                     /db_xref="GI:153935316"
                     /db_xref="GeneID:5398820"
                     /db_xref="Pathema:CLC_0495"
                     /translation="MLEFEQFIEDIIDKRGINENDKLELKYEISSHLLLLKNEYLEKG
                     YDEKTSVKLAIDSFGNSNLIGNALKASLPSKNKYDKFTIKNMTKLICNMILLCLVYMF
                     FFICAFNKNTNSSYFTIGIPLIEAIFSYLCINIKINNPKNAIKSIIICNASLYIILKI
                     FGTLVMIVAILLFGNPYPAYRSLSLTLLGFFLACLSRFFIPSLLFTIISVIFTKLFNK
                     IIFINIRNIYENKITSILMFSLSILLWIGYYLLPNSNLILRKILTNLIKSNDIHSQKN
                     LLYLMINNKLLIPNIGLFILLFLLIKFFILVYKKGIKSLL"
     gene            complement(499969..500289)
                     /locus_tag="CLC_0496"
                     /db_xref="GeneID:5400974"
                     /db_xref="Pathema:CLC_0496"
     CDS             complement(499969..500289)
                     /locus_tag="CLC_0496"
                     /codon_start=1
                     /transl_table=11
                     /product="PadR family transcriptional regulator"
                     /protein_id="YP_001386381.1"
                     /db_xref="GI:153937175"
                     /db_xref="GeneID:5400974"
                     /db_xref="Pathema:CLC_0496"
                     /translation="MDKEIMKGSIDILILTLINKDDLYGYKISKIIKKKSNMTYSMGE
                     GTLYPALKRLESKKLIKSYWKDNDLSGKRKYYSITPLGKSVLKEKLAQWDNITKLITI
                     CMED"
     misc_feature    complement(<499987..500289)
                     /locus_tag="CLC_0496"
                     /note="Predicted transcriptional regulators
                     [Transcription]; Region: COG1695"
                     /db_xref="CDD:224609"
     misc_feature    complement(499975..500274)
                     /locus_tag="CLC_0496"
                     /note="Transcriptional regulator PadR-like family; Region:
                     PadR; cl17335"
                     /db_xref="CDD:247889"
     gene            500630..502798
                     /locus_tag="CLC_0497"
                     /db_xref="GeneID:5398615"
                     /db_xref="Pathema:CLC_0497"
     CDS             500630..502798
                     /locus_tag="CLC_0497"
                     /note="identified by match to protein family HMM PF04055"
                     /codon_start=1
                     /transl_table=11
                     /product="radical SAM domain-containing protein"
                     /protein_id="YP_001386382.1"
                     /db_xref="GI:153936383"
                     /db_xref="GeneID:5398615"
                     /db_xref="Pathema:CLC_0497"
                     /translation="MENRQRKKYKLGSGMSNWKGGQSYEVTFIVTEDCNLRCKYCYQV
                     KKNNRNVMSFDIAKKAVDYVLNNESLYNFDAVIWNFIGGEPFLEIDLIDKITDYIKIQ
                     TYIKKHKWFSMHRFCFSSNGILYGTEEVQKYIKKNQGKCSIGISIDGTKQKHDLQRVY
                     PDGRGSYDDVIKNIPLWISQNPGASTKVTIGHDDLPYVKDSIIHLWNLGISTVPANVV
                     FEDVWKKGDDILFENQLKELADYIIDNKLWNKFECTLFGDSMGYANSEESLNQNHCGA
                     GKMLAIDPKGNLLPCLRYADYSLENKQSYIIGNVNDGIDFDKLRGFFCLNTKVQSDLE
                     CIECEVATGCAWCQANNYDNSVLGSNFERCKYICDMHKAQCRANNYYWGRLEDEFGIH
                     RESYGIQKKHLYMMVSDSIEEHCNYISSSQSNEIMSQKTLYDGYKFAYNNFFKPIIMH
                     SKNLDIEKNLNFRFPLEKINIYGTNYNNEINFDIEKDIQVITQSDINKCSNLTNIIFV
                     VEENDLQNLASNISILLENVDRINLNIKSSNKFNLTMYKEQLNSIVDILLEYFKKGII
                     KEINVITDTLYIKKMDNCEFGENNFALGPNGKIYICPAFYFEDKNSFIGSLEEGINLK
                     DENLFKFKNAPICKNCDNYQCNRCVFFNRKYTNEFNIPSSLQCRISSIERNASILFRE
                     KALKKNINIGTVRELNRLPYEDPIAVIMKNDLNPYKLKSE"
     misc_feature    500705..501772
                     /locus_tag="CLC_0497"
                     /note="radical SAM peptide maturase, CXXX-repeat target
                     family; Region: rSAM_Cxxx_rpt; TIGR04115"
                     /db_xref="CDD:200366"
     misc_feature    500729..>501151
                     /locus_tag="CLC_0497"
                     /note="Radical SAM superfamily. Enzymes of this family
                     generate radicals by combining a 4Fe-4S cluster and
                     S-adenosylmethionine (SAM) in close proximity. They are
                     characterized by a conserved CxxxCxxC motif, which
                     coordinates the conserved iron-sulfur cluster; Region:
                     Radical_SAM; cd01335"
                     /db_xref="CDD:100105"
     misc_feature    order(500729..500731,500735..500737,500741..500743,
                     500747..500755,500870..500872,500876..500881,
                     500984..500992,501065..501067)
                     /locus_tag="CLC_0497"
                     /note="FeS/SAM binding site; other site"
                     /db_xref="CDD:100105"
     misc_feature    501449..501733
                     /locus_tag="CLC_0497"
                     /note="radical SAM additional 4Fe4S-binding SPASM domain;
                     Region: rSAM_more_4Fe4S; TIGR04085"
                     /db_xref="CDD:234461"
     misc_feature    502139..502762
                     /locus_tag="CLC_0497"
                     /note="CXXX repeat peptide maturase; Region: CXXX_matur;
                     TIGR04119"
                     /db_xref="CDD:200370"
     gene            502810..503106
                     /locus_tag="CLC_0498"
                     /db_xref="GeneID:5401377"
                     /db_xref="Pathema:CLC_0498"
     CDS             502810..503106
                     /locus_tag="CLC_0498"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386383.1"
                     /db_xref="GI:153937180"
                     /db_xref="GeneID:5401377"
                     /db_xref="Pathema:CLC_0498"
                     /translation="MMEVENLDNLIITESERNKLEEIIEKIASLKNIYNMVKDNSSAI
                     EFNINIESLENEIKEEQASYNEWWDDIYIKYNLDINEKYILMFEECTLKKQKCS"
     misc_feature    502831..503091
                     /locus_tag="CLC_0498"
                     /note="CXXX repeat peptide modification system protein;
                     Region: CXXX_rpt_assoc; TIGR04116"
                     /db_xref="CDD:234476"
     gene            503232..503414
                     /locus_tag="CLC_0499"
                     /db_xref="GeneID:5399017"
                     /db_xref="Pathema:CLC_0499"
     CDS             503232..503414
                     /locus_tag="CLC_0499"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386384.1"
                     /db_xref="GI:153936555"
                     /db_xref="GeneID:5399017"
                     /db_xref="Pathema:CLC_0499"
                     /translation="MKLDRKIQCNSQELTNNSVVRGCGFASCSHGCFSGCGINCTGKC
                     TGCQSCETSCEHTSSR"
     gene            503506..503685
                     /locus_tag="CLC_0500"
                     /db_xref="GeneID:5400361"
                     /db_xref="Pathema:CLC_0500"
     CDS             503506..503685
                     /locus_tag="CLC_0500"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386385.1"
                     /db_xref="GI:153937648"
                     /db_xref="GeneID:5400361"
                     /db_xref="Pathema:CLC_0500"
                     /translation="MKLDSKVQSNQEDLTNNSVSRGCGFGSCSHGCFTSCGIACAHHC
                     LNACTGCQSCTGGNY"
     gene            503898..505640
                     /locus_tag="CLC_0501"
                     /db_xref="GeneID:5401540"
                     /db_xref="Pathema:CLC_0501"
     CDS             503898..505640
                     /locus_tag="CLC_0501"
                     /note="identified by match to protein family HMM PF00005;
                     match to protein family HMM PF00664"
                     /codon_start=1
                     /transl_table=11
                     /product="multidrug export ATP-binding protein/permease"
                     /protein_id="YP_001386386.1"
                     /db_xref="GI:153937371"
                     /db_xref="GeneID:5401540"
                     /db_xref="Pathema:CLC_0501"
                     /translation="MVSMLKYIRPYKYKIIMLYLVSIISMIIEMTPMYIIGKVIDFAL
                     AKQFEKIIYSIFLLMIIFIITSILSFIETYLNNLINIKLTYEIKKDIFYHIESLPISR
                     LNEFRTGDLISRIQGDINAIPKFYLNSILDAFLSILKCIISILFIFKISISMSIISLC
                     SFPFSFLIYFLFGKKIKIITQKGKKLSDDYYSFIQQSLASIRDIKILTVEKLFHKKHK
                     ILLDKVADNSMNSSIVSTFAGLINNTIINLSEWIIIGYGSWLIIYRNFSAGSYVSFNS
                     YLSELLNSIQKVLSLNIEVQTTIVSINRILEIIGIDTEDYNNKINLDIIDGDIKIENL
                     NFAYSLKEDYLIKDLSVRIKPNSICAFVGLSGCGKSTLFDLLVRFLEYDKGSISIDGF
                     SIKDLNLKSLRKNVSYIQQENFIYNFSIKENLLLGSPNATMGEIVNACKLANIDSFID
                     SLPDKYDTLINEKGNSLSGGQKQRLAIARSILRNSKIFLFDEVTSALDGESEYLITES
                     LMELSKNHTVIMIAHRLTTLINIPQIYVFDKGKIVDKGNHEYLIKNSSLYKRLYEKQW
                     NNYGKNNMSKKVCR"
     misc_feature    503898..505592
                     /locus_tag="CLC_0501"
                     /note="ABC-type multidrug transport system, ATPase and
                     permease components [Defense mechanisms]; Region: MdlB;
                     COG1132"
                     /db_xref="CDD:224055"
     misc_feature    <504114..504752
                     /locus_tag="CLC_0501"
                     /note="ABC transporter transmembrane region; Region:
                     ABC_membrane; pfam00664"
                     /db_xref="CDD:216049"
     misc_feature    504882..505592
                     /locus_tag="CLC_0501"
                     /note="ATP-binding cassette transporter nucleotide-binding
                     domain; Region: ABC_ATPase; cl17201"
                     /db_xref="CDD:247755"
     misc_feature    504984..505007
                     /locus_tag="CLC_0501"
                     /note="Walker A/P-loop; other site"
                     /db_xref="CDD:213179"
     misc_feature    order(504993..504998,505002..505010,505128..505130,
                     505368..505373,505464..505466)
                     /locus_tag="CLC_0501"
                     /note="ATP binding site [chemical binding]; other site"
                     /db_xref="CDD:213179"
     misc_feature    505119..505130
                     /locus_tag="CLC_0501"
                     /note="Q-loop/lid; other site"
                     /db_xref="CDD:213179"
     misc_feature    505296..505325
                     /locus_tag="CLC_0501"
                     /note="ABC transporter signature motif; other site"
                     /db_xref="CDD:213179"
     misc_feature    505356..505373
                     /locus_tag="CLC_0501"
                     /note="Walker B; other site"
                     /db_xref="CDD:213179"
     misc_feature    505380..505391
                     /locus_tag="CLC_0501"
                     /note="D-loop; other site"
                     /db_xref="CDD:213179"
     misc_feature    505452..505472
                     /locus_tag="CLC_0501"
                     /note="H-loop/switch region; other site"
                     /db_xref="CDD:213179"
     gene            complement(505819..506205)
                     /locus_tag="CLC_0502"
                     /db_xref="GeneID:5400303"
                     /db_xref="Pathema:CLC_0502"
     CDS             complement(505819..506205)
                     /locus_tag="CLC_0502"
                     /note="identified by Glimmer3"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386387.1"
                     /db_xref="GI:153935254"
                     /db_xref="GeneID:5400303"
                     /db_xref="Pathema:CLC_0502"
                     /translation="MFNYCNACFVCVPMPMYTTGTKPMLPMEYGHENKTKENEANLKR
                     LYPKIYFKIFPLVKEHCEIMKKEKGKDYCPSEKEVDTVCKEIYKRIKPELDDDEDDYT
                     RQRRYRRRHAINDLIRIIFISQLLGI"
     gene            506512..507162
                     /locus_tag="CLC_0503"
                     /db_xref="GeneID:5400215"
                     /db_xref="Pathema:CLC_0503"
     CDS             506512..507162
                     /locus_tag="CLC_0503"
                     /note="identified by match to protein family HMM PF00515;
                     match to protein family HMM PF07719"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386388.1"
                     /db_xref="GI:153935984"
                     /db_xref="GeneID:5400215"
                     /db_xref="Pathema:CLC_0503"
                     /translation="MKKNLSRKYEKLLLDNYRRNIDNSNYKDLILEGISSHKAIHRYL
                     KDYIKNNKEVLDLNWGKQMLLFIISFNEKDLELAEICYKSLKKYPDNYFTESVMADIN
                     LRFYGNLFKARDKYLNALNLYDRDALVYYNLGLIYYLLGMFKKSMDFYNKSLNYINKM
                     DNKEFIKSKCLYNIAVCEINYNNNYKEGEKLLKRSLKLNPHYKEANDLLEKLRGEK"
     misc_feature    <506758..>507147
                     /locus_tag="CLC_0503"
                     /note="type IV pilus biogenesis/stability protein PilW;
                     Region: type_IV_pilW; TIGR02521"
                     /db_xref="CDD:131573"
     gene            507165..507851
                     /locus_tag="CLC_0504"
                     /db_xref="GeneID:5400429"
                     /db_xref="Pathema:CLC_0504"
     CDS             507165..507851
                     /locus_tag="CLC_0504"
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="YP_001386389.1"
                     /db_xref="GI:153936765"
                     /db_xref="GeneID:5400429"
                     /db_xref="Pathema:CLC_0504"
                     /translation="MMPKQKELWIPNDEVAEKIILIQIECSLNENYEKLENNTMFIES
                     MKRKDNSPVLEVAPKLKNTNILGLYERMLPLTKVDLMYASVYSKTGGVLNLFNEKISE
                     NMDIQFKELSSKSRNTNEAIKKWKGEPSELWSGLTPSQIWAGGGKVEKALLMDFLNKL
                     TELMNGKQFTTKGAAFMNCIDVLRTWQLNKNDICEGKTPMEAIIEERNLILKDKIDFI
                     KENNIECDFV"
     gene            complement(508100..508708)
                     /locus_tag="CLC_0505"
                     /db_xref="GeneID:5400067"
                     /db_xref="Pathema:CLC_0505"
     CDS             complement(508100..508708)
                     /locus_tag="CLC_0505"
                     /note="identified by match to protein family HMM PF00440"
                     /codon_start=1
                     /transl_table=11
                     /product="TetR family transcriptional regulator"
                     /protein_id="YP_001386390.1"
                     /db_xref="GI:153937520"
                     /db_xref="GeneID:5400067"
                     /db_xref="Pathema:CLC_0505"
                     /translation="MNVNEYNQKKQHILEAAIIKFTENGFDKTSLREIASAAGLTTGA
                     IYHHFKNKDELFYHAVKEAMCFAQKLSEKDENSNLKSAEDMLDEISNKVKERMSKINE
                     QRLLVLLIGYVLSKGGALNESLKQDYNEIISKVADMYFFAFGIENEYYKKSLASILIA
                     ALDGVAMQYSLGVLKQEDQKFKDIFVNFFIESIPAFMQKYKP"
     misc_feature    complement(508208..508708)
                     /locus_tag="CLC_0505"
                     /note="Transcriptional regulator [Transcription]; Region:
                     AcrR; COG1309"
                     /db_xref="CDD:224228"
     misc_feature    complement(508541..508672)
                     /locus_tag="CLC_0505"
                     /note="Bacterial regulatory proteins, tetR family; Region:
                     TetR_N; pfam00440"
                     /db_xref="CDD:201228"
     gene            508953..509624
                     /gene="hypB"
                     /locus_tag="CLC_0506"
                     /db_xref="GeneID:5401551"
                     /db_xref="Pathema:CLC_0506"
     CDS             508953..509624
                     /gene="hypB"
                     /locus_tag="CLC_0506"
                     /note="identified by match to protein family HMM PF02492;
                     match to protein family HMM TIGR00073"
                     /codon_start=1
                     /transl_table=11
                     /product="hydrogenase nickel incorporation protein HypB"
                     /protein_id="YP_001386391.1"
                     /db_xref="GI:153936822"
                     /db_xref="GeneID:5401551"
                     /db_xref="Pathema:CLC_0506"
                     /translation="MKTYKVLEIKQSVFENNDRQAELLREELKKKGIFLLNLMSSPGS
                     GKTTTLLRTVKALKNEMNIGVLEADIDSEVDANKVSQSGVKVIQLHTGGMCHLDADMT
                     KQSLNGLGTENIDLAVLENIGNLVCPAEFDTGASRNAMILSIPEGDDKPLKYPLMFSI
                     VDVLLINKIDAKDYFEFDLEAVKERVRKLNPNIKVIPISAKTGEGIEEWIDWIRKEVK
                     IWKES"
     misc_feature    509001..509606
                     /gene="hypB"
                     /locus_tag="CLC_0506"
                     /note="The Fer4_NifH superfamily contains a variety of
                     proteins which share a common ATP-binding domain.
                     Functionally, proteins in this superfamily use the energy
                     from hydrolysis of NTP to transfer electron or ion;
                     Region: Fer4_NifH; cl17203"
                     /db_xref="CDD:247757"
     gene            509860..512538
                     /locus_tag="CLC_0507"
                     /db_xref="GeneID:5399991"
                     /db_xref="Pathema:CLC_0507"
     CDS             509860..512538
                     /locus_tag="CLC_0507"
                     /note="identified by match to protein family HMM PF00037;
                     match to protein family HMM PF00070; match to protein
                     family HMM PF07992"
                     /codon_start=1
                     /transl_table=11
                     /product="pyridine nucleotide-disulfide oxidoreductase"
                     /protein_id="YP_001386392.1"
                     /db_xref="GI:153937564"
                     /db_xref="GeneID:5399991"
                     /db_xref="Pathema:CLC_0507"
                     /translation="MIKEKVLDLANHISNKKRGSKNEIKATDPEYMILEPVVTNEMAE
                     VALCMEIRKKVTAKEIAPLCGKTLEETTKLLLELAEAGVCFVNEVDGIDIFWYDTWVP
                     GIMEMMVNNKKNVKKYPQIARAFEAYGRVRGPKTAGSFPVGVGLMRVIPIEHAISGET
                     RRASYEEVSKYLNENEIFSVADCSCRTAREVMGEGCGHLKEDMCIQMGHAAEYYIRTK
                     RGRQITREEAFEIIKRAEENGLMHQIPNLDGSGKTHAICNCCGCSCLSLRTAGMFINA
                     DMVRSNYVSKVDKEKCVACGECVQNCPVNALQLGQKLCSRTPVTTEIKRTETPRDTEW
                     GPDKWNPDYRINRKNVVDTGTSPCKTQCPAHIAVQGYIKLAAQEKYKEALELIKHENP
                     FPAVCGRICPRKCESACTRGDIDKPVAIDEIKKFIAEQDLNVEYRYVPKRRHEYGKKI
                     AVIGAGPSGLSCAYFLAIDGYKVTVFEKQEVLGGMLTLGIPSFRLEKEVVNAEIDILK
                     ELGVEFKTGVEVGKDVALKELRDQDFKAFYIAIGASMGRKLGIEGEDAENVITGIDFM
                     RDANLGKDLKLEGDVIVIGGGNVAIDVARTATRIGDTQVKMYCLESHEEMPALPEEIE
                     EALSEDIQINNSWGPKRIIVENGRATGIEFKKCISVFNEQGKFNPIYDENNTITVKAD
                     TILLSIGQGMDWGELLKDSKVELNRNNTIKADPVTLQTAEEDIFAGGDALTGPKFAID
                     SIALGKEGAISIHRYVQPGQSLIIGRDRKEYHALDKENLEIEGYDRTPRQDIGHVDGS
                     KSKKTFKDLRGTFTKEQVKKETERCLSCGATVVDEFLCVGCGQCTTKCKFDAISLVRK
                     YDGEGVAYEDLKPVVIKQVLKRKVKITTKKVKTLFK"
     misc_feature    <510628..>510780
                     /locus_tag="CLC_0507"
                     /note="Ferredoxin [Energy production and conversion];
                     Region: NapF; COG1145"
                     /db_xref="CDD:224068"
     misc_feature    510715..510783
                     /locus_tag="CLC_0507"
                     /note="4Fe-4S binding domain; Region: Fer4; pfam00037"
                     /db_xref="CDD:215671"
     misc_feature    510928..512124
                     /locus_tag="CLC_0507"
                     /note="NADPH-dependent glutamate synthase beta chain and
                     related oxidoreductases [Amino acid transport and
                     metabolism / General function prediction only]; Region:
                     GltD; COG0493"
                     /db_xref="CDD:223567"
     misc_feature    511213..>511362
                     /locus_tag="CLC_0507"
                     /note="NAD(P)-binding Rossmann-like domain; Region:
                     NAD_binding_8; pfam13450"
                     /db_xref="CDD:205628"
     gene            512594..512935
                     /gene="hypA"
                     /locus_tag="CLC_0508"
                     /db_xref="GeneID:5399199"
                     /db_xref="Pathema:CLC_0508"
     CDS             512594..512935
                     /gene="hypA"
                     /locus_tag="CLC_0508"
                     /note="identified by match to protein family HMM PF01155"
                     /codon_start=1
                     /transl_table=11
                     /product="hydrogenase nickel incorporation protein HypA"
                     /protein_id="YP_001386393.1"
                     /db_xref="GI:153937380"
                     /db_xref="GeneID:5399199"
                     /db_xref="Pathema:CLC_0508"
                     /translation="MHELGVIIEVVKTVEDIAIKNHLTKIDTIVLQIGELSSMIP