ID A0A063CNL2_BACCE Unreviewed; 430 AA.
AC A0A063CNL2;
DT 03-SEP-2014, integrated into UniProtKB/TrEMBL.
DT 03-SEP-2014, sequence version 1.
DT 27-MAR-2024, entry version 70.
DE RecName: Full=Isocitrate dehydrogenase [NADP] {ECO:0000256|ARBA:ARBA00019562, ECO:0000256|RuleBase:RU004446};
DE EC=1.1.1.42 {ECO:0000256|ARBA:ARBA00013013, ECO:0000256|RuleBase:RU004446};
GN Name=icd {ECO:0000313|EMBL:SUV04640.1};
GN ORFNames=A9485_11235 {ECO:0000313|EMBL:OJD88413.1}, AT268_29070
GN {ECO:0000313|EMBL:KXY42150.1}, B4082_5103
GN {ECO:0000313|EMBL:KZD27566.1}, BHL25_04425
GN {ECO:0000313|EMBL:OOZ89964.1}, BKK64_16115
GN {ECO:0000313|EMBL:OJS94730.1}, D0437_22380
GN {ECO:0000313|EMBL:QDZ75677.1}, DR116_0020565
GN {ECO:0000313|EMBL:RWQ72287.1}, F8172_05045
GN {ECO:0000313|EMBL:KAB2398233.1}, FC692_05830
GN {ECO:0000313|EMBL:TKH30749.1}, FOC96_09640
GN {ECO:0000313|EMBL:QKH00453.1}, HPG46_22040
GN {ECO:0000313|EMBL:QKE09473.1}, JCR31_04585
GN {ECO:0000313|EMBL:MBK1607181.1}, MOE39_02995
GN {ECO:0000313|EMBL:MCY8952819.1}, N7988_22965
GN {ECO:0000313|EMBL:UXP13641.1}, NCTC7464_01806
GN {ECO:0000313|EMBL:SUV04640.1}, TQ94_24895
GN {ECO:0000313|EMBL:KMP14479.1}, WR52_23595
GN {ECO:0000313|EMBL:ANC21644.1};
OS Bacillus cereus.
OC Bacteria; Bacillota; Bacilli; Bacillales; Bacillaceae; Bacillus;
OC Bacillus cereus group.
OX NCBI_TaxID=1396 {ECO:0000313|EMBL:SUV04640.1, ECO:0000313|Proteomes:UP000255293};
RN [1] {ECO:0000313|EMBL:KMP14479.1, ECO:0000313|Proteomes:UP000036243}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=#17 {ECO:0000313|EMBL:KMP14479.1,
RC ECO:0000313|Proteomes:UP000036243};
RA Boehm M.-E., Huptas C., Krey V.M., Scherer S.;
RT "Evolution of B. cereus sensu lato: Distribution, horizontal transfer and
RT duplication of chromosomal virulence genes.";
RL Submitted (FEB-2015) to the EMBL/GenBank/DDBJ databases.
RN [2] {ECO:0000313|EMBL:ANC21644.1, ECO:0000313|Proteomes:UP000076832}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=HN001 {ECO:0000313|EMBL:ANC21644.1,
RC ECO:0000313|Proteomes:UP000076832};
RA Wang Y., Tian W., Zhu L., Wang B., Wang H., Zeng M.;
RL Submitted (APR-2015) to the EMBL/GenBank/DDBJ databases.
RN [3] {ECO:0000313|EMBL:KZD27566.1, ECO:0000313|Proteomes:UP000076501}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=B4082 {ECO:0000313|EMBL:KZD27566.1,
RC ECO:0000313|Proteomes:UP000076501};
RA Boekhorst J.;
RT "Bacillus cereus food isolates.";
RL Submitted (SEP-2015) to the EMBL/GenBank/DDBJ databases.
RN [4] {ECO:0000313|EMBL:KXY42150.1, ECO:0000313|Proteomes:UP000075476}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=FSL K6-0073 {ECO:0000313|EMBL:KXY42150.1,
RC ECO:0000313|Proteomes:UP000075476};
RA Kovac J.;
RT "Bacillus cereus Group isolate.";
RL Submitted (DEC-2015) to the EMBL/GenBank/DDBJ databases.
RN [5] {ECO:0000313|EMBL:OJD88413.1, ECO:0000313|Proteomes:UP000183583}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=A8S3 {ECO:0000313|EMBL:OJD88413.1,
RC ECO:0000313|Proteomes:UP000183583};
RA Liu Y., Lai Q., Shao Z.;
RT "First insights into the genetic diversity and population structure of in
RT the Bacillus cereus group bacteria from diverse marine environments.";
RL Submitted (JUN-2016) to the EMBL/GenBank/DDBJ databases.
RN [6] {ECO:0000313|EMBL:OJS94730.1, ECO:0000313|Proteomes:UP000184161}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=16SBCL1279 {ECO:0000313|EMBL:OJS94730.1,
RC ECO:0000313|Proteomes:UP000184161};
RA Woudstra C., Chamoin A., Gentil S., Rambeloson T., Delannoye S.,
RA Heinnekine J.A., Herbin S., Fach P.;
RT "Draft Genome Sequence of one Bacillus cereus strain isolated from pooled
RT breast milk.";
RL Submitted (OCT-2016) to the EMBL/GenBank/DDBJ databases.
RN [7] {ECO:0000313|EMBL:OOZ89964.1, ECO:0000313|Proteomes:UP000190595}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=MOD1_Bc20 {ECO:0000313|EMBL:OOZ89964.1,
RC ECO:0000313|Proteomes:UP000190595};
RA Chase H., Carter L., Tall B., Gopinath G.;
RT "Genome sequences of Bacillus cereus isolates from spices and other dried
RT food sources.";
RL Submitted (NOV-2016) to the EMBL/GenBank/DDBJ databases.
RN [8] {ECO:0000313|EMBL:SUV04640.1, ECO:0000313|Proteomes:UP000255293}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=NCTC7464 {ECO:0000313|EMBL:SUV04640.1,
RC ECO:0000313|Proteomes:UP000255293};
RG Pathogen Informatics;
RA Doyle S.;
RL Submitted (JUN-2018) to the EMBL/GenBank/DDBJ databases.
RN [9] {ECO:0000313|EMBL:QDZ75677.1, ECO:0000313|Proteomes:UP000321735}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=Co1-1 {ECO:0000313|EMBL:QDZ75677.1,
RC ECO:0000313|Proteomes:UP000321735};
RX PubMed=31228823; DOI=.1016/j.ecoenv.2019.06.036;
RA Cai X., Zheng X., Zhang D., Iqbal W., Liu C., Yang B., Zhao X., Lu X.,
RA Mao Y.;
RT "Microbial characterization of heavy metal resistant bacterial strains
RT isolated from an electroplating wastewater treatment plant.";
RL Ecotoxicol. Environ. Saf. 181:472-480(2019).
RN [10] {ECO:0000313|EMBL:TKH30749.1, ECO:0000313|Proteomes:UP000306829}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=I75 {ECO:0000313|EMBL:TKH30749.1,
RC ECO:0000313|Proteomes:UP000306829};
RX PubMed=30637927; DOI=.1111/1462-2920.14526;
RA Bucher T., Keren-Paz A., Hausser J., Olender T., Cytryn E.,
RA Kolodkin-Gal I.;
RT "An active ?-lactamase is a part of an orchestrated cell wall stress
RT resistance network of Bacillus subtilis and related rhizosphere species.";
RL Environ. Microbiol. 21:1068-1085(2019).
RN [11] {ECO:0000313|EMBL:RWQ72287.1, ECO:0000313|Proteomes:UP000253597}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=NWUAB01 {ECO:0000313|EMBL:RWQ72287.1,
RC ECO:0000313|Proteomes:UP000253597};
RA Babalola O., Aremu B.R., Ayangbenro A.S.;
RT "Draft genome sequence of heavy metal resistant Bacillus cereus NWUAB01.";
RL Submitted (JAN-2019) to the EMBL/GenBank/DDBJ databases.
RN [12] {ECO:0000313|EMBL:KAB2398233.1, ECO:0000313|Proteomes:UP000475765}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=CH417_13T {ECO:0000313|EMBL:KAB2398233.1,
RC ECO:0000313|Proteomes:UP000475765};
RA Olmedo-Alvarez G., Saldana S., Barcelo D.;
RT "Bacillus from the desert of Cuatro Cinegas, Coahuila.";
RL Submitted (OCT-2019) to the EMBL/GenBank/DDBJ databases.
RN [13] {ECO:0000313|Proteomes:UP000503196}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=CTMA_1571 {ECO:0000313|Proteomes:UP000503196};
RA Irenge L., Bearzatto B., Durant J.-F., Ambroise J., Gala J.-L.;
RT "Complete genome sequence of an environmental Bacillus cereus isolate from
RT northern Namibia.";
RL Submitted (MAY-2020) to the EMBL/GenBank/DDBJ databases.
RN [14] {ECO:0000313|EMBL:QKH00453.1, ECO:0000313|Proteomes:UP000501276}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=FDAARGOS_802 {ECO:0000313|EMBL:QKH00453.1,
RC ECO:0000313|Proteomes:UP000501276};
RA Nelson B., Plummer A., Tallon L., Sadzewicz L., Zhao X., Vavikolanu K.,
RA Mehta A., Aluvathingal J., Nadendla S., Myers T., Yan Y., Sichtig H.;
RT "FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS):
RT Supporting development and validation of Infectious Disease Dx tests.";
RL Submitted (MAY-2020) to the EMBL/GenBank/DDBJ databases.
RN [15] {ECO:0000313|EMBL:QKE09473.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=CTMA_1571 {ECO:0000313|EMBL:QKE09473.1};
RA Irenge L., Bearzatto B., Durant J.-F., Ambroise J., Gala J.-L.;
RT "Complete genome sequence of an environmental Bacillus cereus isolate from
RT northern Namibia.";
RL Submitted (OCT-2020) to the EMBL/GenBank/DDBJ databases.
RN [16] {ECO:0000313|EMBL:MBK1607181.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=MAKP1 {ECO:0000313|EMBL:MBK1607181.1};
RA Malaviya A.;
RT "Genome assembly for a thermostable protease producing Bacillus cereus
RT MAKP1 strain isolated from chicken gut.";
RL Submitted (DEC-2020) to the EMBL/GenBank/DDBJ databases.
RN [17] {ECO:0000313|EMBL:MCY8952819.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=CK4F4A-3 {ECO:0000313|EMBL:MCY8952819.1};
RA Dunlap C.;
RT "Crop Bioprotection Bacillus Genome Sequencing.";
RL Submitted (FEB-2022) to the EMBL/GenBank/DDBJ databases.
RN [18] {ECO:0000313|EMBL:UXP13641.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=SRCM116293 {ECO:0000313|EMBL:UXP13641.1};
RA Yang H.-G., Jeong S.-J., Ha G.-S., Yang H.-J., Jeong D.-Y.;
RT "Complete genome sequence of Bacillus cereus SRCM116293 isolated from
RT soil.";
RL Submitted (SEP-2022) to the EMBL/GenBank/DDBJ databases.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=D-threo-isocitrate + NADP(+) = 2-oxoglutarate + CO2 + NADPH;
CC Xref=Rhea:RHEA:19629, ChEBI:CHEBI:15562, ChEBI:CHEBI:16526,
CC ChEBI:CHEBI:16810, ChEBI:CHEBI:57783, ChEBI:CHEBI:58349; EC=1.1.1.42;
CC Evidence={ECO:0000256|ARBA:ARBA00023554};
CC -!- COFACTOR:
CC Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
CC Evidence={ECO:0000256|PIRSR:PIRSR604439-3};
CC Name=Mn(2+); Xref=ChEBI:CHEBI:29035;
CC Evidence={ECO:0000256|PIRSR:PIRSR604439-3};
CC Note=Binds 1 Mg(2+) or Mn(2+) ion per subunit.
CC {ECO:0000256|PIRSR:PIRSR604439-3};
CC -!- COFACTOR:
CC Name=Mn(2+); Xref=ChEBI:CHEBI:29035;
CC Evidence={ECO:0000256|ARBA:ARBA00001936};
CC -!- SIMILARITY: Belongs to the isocitrate and isopropylmalate
CC dehydrogenases family. {ECO:0000256|ARBA:ARBA00007769}.
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DR EMBL; CP011155; ANC21644.1; -; Genomic_DNA.
DR EMBL; WBPP01000008; KAB2398233.1; -; Genomic_DNA.
DR EMBL; JYFW01000039; KMP14479.1; -; Genomic_DNA.
DR EMBL; LOMO01000057; KXY42150.1; -; Genomic_DNA.
DR EMBL; LJKA01000073; KZD27566.1; -; Genomic_DNA.
DR EMBL; JAEFBZ010000001; MBK1607181.1; -; Genomic_DNA.
DR EMBL; JALAUF010000005; MCY8952819.1; -; Genomic_DNA.
DR EMBL; LZQY01000093; OJD88413.1; -; Genomic_DNA.
DR EMBL; MLYK01000036; OJS94730.1; -; Genomic_DNA.
DR EMBL; MQTB01000007; OOZ89964.1; -; Genomic_DNA.
DR EMBL; CP031778; QDZ75677.1; -; Genomic_DNA.
DR EMBL; CP053656; QKE09473.1; -; Genomic_DNA.
DR EMBL; CP053965; QKH00453.1; -; Genomic_DNA.
DR EMBL; QNGD03000010; RWQ72287.1; -; Genomic_DNA.
DR EMBL; UFSU01000001; SUV04640.1; -; Genomic_DNA.
DR EMBL; SZOE01000037; TKH30749.1; -; Genomic_DNA.
DR EMBL; CP106675; UXP13641.1; -; Genomic_DNA.
DR RefSeq; WP_000206898.1; NZ_WBPP01000008.1.
DR GeneID; 83638306; -.
DR KEGG; bcef:BcrFT9_03641; -.
DR PATRIC; fig|1396.419.peg.598; -.
DR OMA; CVRPCRY; -.
DR OrthoDB; 9806254at2; -.
DR Proteomes; UP000036243; Unassembled WGS sequence.
DR Proteomes; UP000075476; Unassembled WGS sequence.
DR Proteomes; UP000076501; Unassembled WGS sequence.
DR Proteomes; UP000076832; Chromosome.
DR Proteomes; UP000183583; Unassembled WGS sequence.
DR Proteomes; UP000184161; Unassembled WGS sequence.
DR Proteomes; UP000190595; Unassembled WGS sequence.
DR Proteomes; UP000253597; Unassembled WGS sequence.
DR Proteomes; UP000255293; Unassembled WGS sequence.
DR Proteomes; UP000306829; Unassembled WGS sequence.
DR Proteomes; UP000321735; Chromosome.
DR Proteomes; UP000475765; Unassembled WGS sequence.
DR Proteomes; UP000501276; Chromosome.
DR Proteomes; UP000503196; Chromosome.
DR Proteomes; UP000613452; Unassembled WGS sequence.
DR Proteomes; UP001065078; Chromosome.
DR Proteomes; UP001067963; Unassembled WGS sequence.
DR GO; GO:0004450; F:isocitrate dehydrogenase (NADP+) activity; IEA:UniProtKB-EC.
DR GO; GO:0000287; F:magnesium ion binding; IEA:InterPro.
DR GO; GO:0051287; F:NAD binding; IEA:InterPro.
DR GO; GO:0006097; P:glyoxylate cycle; IEA:UniProtKB-KW.
DR GO; GO:0006099; P:tricarboxylic acid cycle; IEA:UniProtKB-KW.
DR Gene3D; 3.40.718.10; Isopropylmalate Dehydrogenase; 1.
DR InterPro; IPR019818; IsoCit/isopropylmalate_DH_CS.
DR InterPro; IPR004439; Isocitrate_DH_NADP_dimer_prok.
DR InterPro; IPR024084; IsoPropMal-DH-like_dom.
DR NCBIfam; TIGR00183; prok_nadp_idh; 1.
DR PANTHER; PTHR43504; ISOCITRATE DEHYDROGENASE [NADP]; 1.
DR PANTHER; PTHR43504:SF1; ISOCITRATE DEHYDROGENASE [NADP]; 1.
DR Pfam; PF00180; Iso_dh; 1.
DR SMART; SM01329; Iso_dh; 1.
DR SUPFAM; SSF53659; Isocitrate/Isopropylmalate dehydrogenase-like; 1.
DR PROSITE; PS00470; IDH_IMDH; 1.
PE 3: Inferred from homology;
KW Glyoxylate bypass {ECO:0000256|ARBA:ARBA00022435,
KW ECO:0000256|RuleBase:RU004446};
KW Magnesium {ECO:0000256|ARBA:ARBA00022842, ECO:0000256|PIRSR:PIRSR604439-3};
KW Manganese {ECO:0000256|PIRSR:PIRSR604439-3, ECO:0000256|RuleBase:RU004446};
KW Metal-binding {ECO:0000256|ARBA:ARBA00022723,
KW ECO:0000256|RuleBase:RU004446};
KW NADP {ECO:0000256|ARBA:ARBA00022857, ECO:0000256|PIRSR:PIRSR604439-2};
KW Oxidoreductase {ECO:0000256|ARBA:ARBA00023002,
KW ECO:0000313|EMBL:SUV04640.1};
KW Tricarboxylic acid cycle {ECO:0000256|ARBA:ARBA00022532,
KW ECO:0000256|RuleBase:RU004446}.
FT DOMAIN 21..418
FT /note="Isopropylmalate dehydrogenase-like"
FT /evidence="ECO:0000259|SMART:SM01329"
FT BINDING 95
FT /ligand="NADP(+)"
FT /ligand_id="ChEBI:CHEBI:58349"
FT /evidence="ECO:0000256|PIRSR:PIRSR604439-2"
FT BINDING 104
FT /ligand="substrate"
FT /evidence="ECO:0000256|PIRSR:PIRSR604439-1"
FT BINDING 106
FT /ligand="substrate"
FT /evidence="ECO:0000256|PIRSR:PIRSR604439-1"
FT BINDING 110
FT /ligand="substrate"
FT /evidence="ECO:0000256|PIRSR:PIRSR604439-1"
FT BINDING 120
FT /ligand="substrate"
FT /evidence="ECO:0000256|PIRSR:PIRSR604439-1"
FT BINDING 144
FT /ligand="substrate"
FT /evidence="ECO:0000256|PIRSR:PIRSR604439-1"
FT BINDING 311
FT /ligand="Mg(2+)"
FT /ligand_id="ChEBI:CHEBI:18420"
FT /evidence="ECO:0000256|PIRSR:PIRSR604439-3"
FT BINDING 345..351
FT /ligand="NADP(+)"
FT /ligand_id="ChEBI:CHEBI:58349"
FT /evidence="ECO:0000256|PIRSR:PIRSR604439-2"
FT BINDING 358
FT /ligand="NADP(+)"
FT /ligand_id="ChEBI:CHEBI:58349"
FT /evidence="ECO:0000256|PIRSR:PIRSR604439-2"
FT BINDING 397
FT /ligand="NADP(+)"
FT /ligand_id="ChEBI:CHEBI:58349"
FT /evidence="ECO:0000256|PIRSR:PIRSR604439-2"
FT BINDING 401
FT /ligand="NADP(+)"
FT /ligand_id="ChEBI:CHEBI:58349"
FT /evidence="ECO:0000256|PIRSR:PIRSR604439-2"
FT SITE 151
FT /note="Critical for catalysis"
FT /evidence="ECO:0000256|PIRSR:PIRSR604439-4"
FT SITE 221
FT /note="Critical for catalysis"
FT /evidence="ECO:0000256|PIRSR:PIRSR604439-4"
FT MOD_RES 91
FT /note="N6-succinyllysine"
FT /evidence="ECO:0000256|PIRSR:PIRSR604439-5"
FT MOD_RES 104
FT /note="Phosphoserine"
FT /evidence="ECO:0000256|PIRSR:PIRSR604439-5"
FT MOD_RES 133
FT /note="N6-acetyllysine"
FT /evidence="ECO:0000256|PIRSR:PIRSR604439-5"
FT MOD_RES 233
FT /note="N6-succinyllysine"
FT /evidence="ECO:0000256|PIRSR:PIRSR604439-5"
SQ SEQUENCE 430 AA; 46973 MW; 2238E99660A705F3 CRC64;
MTTGEKITVT NGVMNVPNNP IIPFIEGDGI GPDIWAAASR VLEAAVEKAY DGEKKIVWKE
VLAGEKAFNQ TGEWLPEETL NLIREYLIAI KGPLTTPVGG GIRSLNVALR QELDLYVCLR
PVRYFEGVPS PVKRPEDTDM VIFRENTEDI YAGIEYAQGS PEAEKVLAFL KEAMGVNKIR
FPETSGIGIK PISEEGTKRL VRAAIQYAIN EKRSSVTLVH KGNIMKFTEG AFKNWGYEVA
EQEFGDKVFT WAEYDRIVEK DGKDAANKAM ADAEVAGKII VKDSIADIFL QQILTRPREF
DVVATMNLNG DYISDALAAQ VGGIGIAPGA NINYVTGHAI FEATHGTAPK YAGLDKVNPS
SVLLSGVLLL EHLGWNEAAK LVTASVEKTI ASKVVTYDFA RLMEGATEVK CSEFANELIK
NMDVAIIKNA
//
