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Database: UniProt
Entry: O29632
LinkDB: O29632
Original site: O29632 
ID   DNLI_ARCFU              Reviewed;         555 AA.
AC   O29632;
DT   15-JUL-1999, integrated into UniProtKB/Swiss-Prot.
DT   20-JUN-2001, sequence version 2.
DT   08-NOV-2023, entry version 138.
DE   RecName: Full=DNA ligase {ECO:0000255|HAMAP-Rule:MF_00407};
DE            EC=6.5.1.1 {ECO:0000255|HAMAP-Rule:MF_00407};
DE   AltName: Full=Polydeoxyribonucleotide synthase [ATP] {ECO:0000255|HAMAP-Rule:MF_00407};
GN   Name=lig {ECO:0000255|HAMAP-Rule:MF_00407}; OrderedLocusNames=AF_0623;
OS   Archaeoglobus fulgidus (strain ATCC 49558 / DSM 4304 / JCM 9628 / NBRC
OS   100126 / VC-16).
OC   Archaea; Euryarchaeota; Archaeoglobi; Archaeoglobales; Archaeoglobaceae;
OC   Archaeoglobus.
OX   NCBI_TaxID=224325;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=ATCC 49558 / DSM 4304 / JCM 9628 / NBRC 100126 / VC-16;
RX   PubMed=9389475; DOI=10.1038/37052;
RA   Klenk H.-P., Clayton R.A., Tomb J.-F., White O., Nelson K.E., Ketchum K.A.,
RA   Dodson R.J., Gwinn M.L., Hickey E.K., Peterson J.D., Richardson D.L.,
RA   Kerlavage A.R., Graham D.E., Kyrpides N.C., Fleischmann R.D.,
RA   Quackenbush J., Lee N.H., Sutton G.G., Gill S.R., Kirkness E.F.,
RA   Dougherty B.A., McKenney K., Adams M.D., Loftus B.J., Peterson S.N.,
RA   Reich C.I., McNeil L.K., Badger J.H., Glodek A., Zhou L., Overbeek R.,
RA   Gocayne J.D., Weidman J.F., McDonald L.A., Utterback T.R., Cotton M.D.,
RA   Spriggs T., Artiach P., Kaine B.P., Sykes S.M., Sadow P.W., D'Andrea K.P.,
RA   Bowman C., Fujii C., Garland S.A., Mason T.M., Olsen G.J., Fraser C.M.,
RA   Smith H.O., Woese C.R., Venter J.C.;
RT   "The complete genome sequence of the hyperthermophilic, sulphate-reducing
RT   archaeon Archaeoglobus fulgidus.";
RL   Nature 390:364-370(1997).
CC   -!- FUNCTION: DNA ligase that seals nicks in double-stranded DNA during DNA
CC       replication, DNA recombination and DNA repair. {ECO:0000255|HAMAP-
CC       Rule:MF_00407}.
CC   -!- CATALYTIC ACTIVITY:
CC       Reaction=ATP + (deoxyribonucleotide)n-3'-hydroxyl + 5'-phospho-
CC         (deoxyribonucleotide)m = (deoxyribonucleotide)n+m + AMP +
CC         diphosphate.; EC=6.5.1.1; Evidence={ECO:0000255|HAMAP-Rule:MF_00407};
CC   -!- COFACTOR:
CC       Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
CC         Evidence={ECO:0000255|HAMAP-Rule:MF_00407};
CC   -!- SIMILARITY: Belongs to the ATP-dependent DNA ligase family.
CC       {ECO:0000255|HAMAP-Rule:MF_00407}.
CC   -!- SEQUENCE CAUTION:
CC       Sequence=AAB90616.1; Type=Erroneous initiation; Evidence={ECO:0000305};
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DR   EMBL; AE000782; AAB90616.1; ALT_INIT; Genomic_DNA.
DR   PIR; G69327; G69327.
DR   PDB; 3GDE; X-ray; 2.30 A; A=1-555.
DR   PDBsum; 3GDE; -.
DR   AlphaFoldDB; O29632; -.
DR   SMR; O29632; -.
DR   STRING; 224325.AF_0623; -.
DR   PaxDb; 224325-AF_0623; -.
DR   EnsemblBacteria; AAB90616; AAB90616; AF_0623.
DR   KEGG; afu:AF_0623; -.
DR   eggNOG; arCOG01347; Archaea.
DR   HOGENOM; CLU_005138_6_0_2; -.
DR   OMA; WLFEESY; -.
DR   OrthoDB; 31274at2157; -.
DR   PhylomeDB; O29632; -.
DR   BRENDA; 6.5.1.1; 414.
DR   EvolutionaryTrace; O29632; -.
DR   Proteomes; UP000002199; Chromosome.
DR   GO; GO:0005524; F:ATP binding; IEA:UniProtKB-UniRule.
DR   GO; GO:0003677; F:DNA binding; IEA:InterPro.
DR   GO; GO:0003910; F:DNA ligase (ATP) activity; IEA:UniProtKB-UniRule.
DR   GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR   GO; GO:0007049; P:cell cycle; IEA:UniProtKB-KW.
DR   GO; GO:0051301; P:cell division; IEA:UniProtKB-KW.
DR   GO; GO:0071897; P:DNA biosynthetic process; IEA:InterPro.
DR   GO; GO:0006310; P:DNA recombination; IEA:UniProtKB-UniRule.
DR   GO; GO:0006281; P:DNA repair; IEA:UniProtKB-UniRule.
DR   GO; GO:0006260; P:DNA replication; IEA:UniProtKB-UniRule.
DR   CDD; cd07901; Adenylation_DNA_ligase_Arch_LigB; 1.
DR   CDD; cd07972; OBF_DNA_ligase_Arch_LigB; 1.
DR   Gene3D; 1.10.3260.10; DNA ligase, ATP-dependent, N-terminal domain; 1.
DR   Gene3D; 3.30.470.30; DNA ligase/mRNA capping enzyme; 1.
DR   Gene3D; 2.40.50.140; Nucleic acid-binding proteins; 1.
DR   HAMAP; MF_00407; DNA_ligase; 1.
DR   InterPro; IPR022865; DNA_ligae_ATP-dep_bac/arc.
DR   InterPro; IPR000977; DNA_ligase_ATP-dep.
DR   InterPro; IPR012309; DNA_ligase_ATP-dep_C.
DR   InterPro; IPR012310; DNA_ligase_ATP-dep_cent.
DR   InterPro; IPR016059; DNA_ligase_ATP-dep_CS.
DR   InterPro; IPR012308; DNA_ligase_ATP-dep_N.
DR   InterPro; IPR036599; DNA_ligase_N_sf.
DR   InterPro; IPR012340; NA-bd_OB-fold.
DR   NCBIfam; TIGR00574; dnl1; 1.
DR   PANTHER; PTHR45674:SF7; DNA LIGASE; 1.
DR   PANTHER; PTHR45674; DNA LIGASE 1/3 FAMILY MEMBER; 1.
DR   Pfam; PF04679; DNA_ligase_A_C; 1.
DR   Pfam; PF01068; DNA_ligase_A_M; 1.
DR   Pfam; PF04675; DNA_ligase_A_N; 1.
DR   SUPFAM; SSF117018; ATP-dependent DNA ligase DNA-binding domain; 1.
DR   SUPFAM; SSF56091; DNA ligase/mRNA capping enzyme, catalytic domain; 1.
DR   SUPFAM; SSF50249; Nucleic acid-binding proteins; 1.
DR   PROSITE; PS00697; DNA_LIGASE_A1; 1.
DR   PROSITE; PS00333; DNA_LIGASE_A2; 1.
DR   PROSITE; PS50160; DNA_LIGASE_A3; 1.
PE   1: Evidence at protein level;
KW   3D-structure; ATP-binding; Cell cycle; Cell division; DNA damage;
KW   DNA recombination; DNA repair; DNA replication; Ligase; Magnesium;
KW   Metal-binding; Nucleotide-binding; Reference proteome.
FT   CHAIN           1..555
FT                   /note="DNA ligase"
FT                   /id="PRO_0000059601"
FT   ACT_SITE        249
FT                   /note="N6-AMP-lysine intermediate"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00407"
FT   BINDING         247
FT                   /ligand="ATP"
FT                   /ligand_id="ChEBI:CHEBI:30616"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00407"
FT   BINDING         254
FT                   /ligand="ATP"
FT                   /ligand_id="ChEBI:CHEBI:30616"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00407"
FT   BINDING         269
FT                   /ligand="ATP"
FT                   /ligand_id="ChEBI:CHEBI:30616"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00407"
FT   BINDING         298
FT                   /ligand="ATP"
FT                   /ligand_id="ChEBI:CHEBI:30616"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00407"
FT   BINDING         337
FT                   /ligand="ATP"
FT                   /ligand_id="ChEBI:CHEBI:30616"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00407"
FT   BINDING         411
FT                   /ligand="ATP"
FT                   /ligand_id="ChEBI:CHEBI:30616"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00407"
FT   BINDING         417
FT                   /ligand="ATP"
FT                   /ligand_id="ChEBI:CHEBI:30616"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00407"
FT   HELIX           3..13
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           19..31
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           36..46
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           63..74
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           78..88
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           91..105
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           114..126
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           132..146
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           149..159
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           169..179
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           184..194
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           197..213
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          227..230
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           234..240
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          241..249
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          251..259
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          265..268
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           275..277
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           279..288
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          291..303
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          306..308
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           310..318
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           324..329
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          332..345
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           351..361
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          366..370
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          373..377
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           379..391
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          396..400
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          411..421
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          425..434
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           439..441
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          442..451
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   TURN            453..455
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          458..464
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           470..480
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           481..483
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          484..488
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          491..494
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          499..503
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          505..509
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          511..513
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          516..521
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   STRAND          523..527
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           533..535
FT                   /evidence="ECO:0007829|PDB:3GDE"
FT   HELIX           539..547
FT                   /evidence="ECO:0007829|PDB:3GDE"
SQ   SEQUENCE   555 AA;  63553 MW;  D050FE80B2341EDB CRC64;
     MLFAEFAEFC ERLEKISSTL ELTARIAAFL QKIEDERDLY DVVLFITGKV YPPWDERELG
     VGIGLLYEAL ENVSGVKRSE IESMIREYGD LGLVAEQLIK KKKMTTLAFE ELTVRKVRET
     FDEIASLTGE GSMKRKIMLL TGLYGLATPL EARYLTRLIL NEMRLGVGEG IMRDAIARAF
     RADPETVERA YMITNDLGRV AVVAKKEGEE GLRKMKIEIH IPVRMMLAQV AESLESAVRE
     MRTAAVEWKF DGSRVQVHWD GSRVTIYSRR LENVTNALPD IVEEIKKSVK PGVILDGEVI
     AVKEGKPMPF QHVLRRFRRK HDVAKMVEKI PLEAHFFDIL YHDGECIDLP LRERRKLLES
     AVNESEKIKL AKQIVTDSVD EVRKMYDEAI SAGHEGVMIK LPSSPYIPGK RGKNWLKVKA
     IMETLDLVVV GGEWGEGKRS HWLSSFELAC LDPVTGKLLK VGRVATGFTE EDLEELTEMF
     RPLIVSQQGK KVEFIPKYVF EVAYQEIQKS PKYESGYALR FPRFVRLRDD KDVDEADTIE
     RVENLYKLQF EVKRQ
//
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