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O29632

- DNLI_ARCFU

UniProt

O29632 - DNLI_ARCFU

Protein

DNA ligase

Gene

lig

Organism
Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 96 (01 Oct 2014)
      Sequence version 2 (20 Jun 2001)
      Previous versions | rss
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    Functioni

    DNA ligase that seals nicks in double-stranded DNA during DNA replication, DNA recombination and DNA repair.By similarity

    Catalytic activityi

    ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m).

    Cofactori

    Divalent metal cations.By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei247 – 2471ATPBy similarity
    Active sitei249 – 2491N6-AMP-lysine intermediateBy similarity
    Binding sitei254 – 2541ATPBy similarity
    Binding sitei269 – 2691ATPBy similarity
    Binding sitei298 – 2981ATPBy similarity
    Binding sitei337 – 3371ATPBy similarity
    Binding sitei411 – 4111ATPBy similarity
    Binding sitei417 – 4171ATPBy similarity

    GO - Molecular functioni

    1. ATP binding Source: UniProtKB-HAMAP
    2. DNA binding Source: InterPro
    3. DNA ligase (ATP) activity Source: UniProtKB-HAMAP
    4. metal ion binding Source: UniProtKB-KW

    GO - Biological processi

    1. cell cycle Source: UniProtKB-KW
    2. cell division Source: UniProtKB-KW
    3. DNA ligation involved in DNA repair Source: InterPro
    4. DNA recombination Source: UniProtKB-HAMAP
    5. DNA replication Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    Ligase

    Keywords - Biological processi

    Cell cycle, Cell division, DNA damage, DNA recombination, DNA repair, DNA replication

    Keywords - Ligandi

    ATP-binding, Metal-binding, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciAFUL224325:GJBC-638-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA ligase (EC:6.5.1.1)
    Alternative name(s):
    Polydeoxyribonucleotide synthase [ATP]
    Gene namesi
    Name:lig
    Ordered Locus Names:AF_0623
    OrganismiArchaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
    Taxonomic identifieri224325 [NCBI]
    Taxonomic lineageiArchaeaEuryarchaeotaArchaeoglobiArchaeoglobalesArchaeoglobaceaeArchaeoglobus
    ProteomesiUP000002199: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 555555DNA ligasePRO_0000059601Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi224325.AF0623.

    Structurei

    Secondary structure

    1
    555
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi3 – 1311
    Helixi19 – 3113
    Helixi36 – 4611
    Helixi63 – 7412
    Helixi78 – 8811
    Helixi91 – 10515
    Helixi114 – 12613
    Helixi132 – 14615
    Helixi149 – 15911
    Helixi169 – 17911
    Helixi184 – 19411
    Helixi197 – 21317
    Beta strandi227 – 2304
    Helixi234 – 2407
    Beta strandi241 – 2499
    Beta strandi251 – 2599
    Beta strandi265 – 2684
    Helixi275 – 2773
    Helixi279 – 28810
    Beta strandi291 – 30313
    Beta strandi306 – 3083
    Helixi310 – 3189
    Helixi324 – 3296
    Beta strandi332 – 34514
    Helixi351 – 36111
    Beta strandi366 – 3705
    Beta strandi373 – 3775
    Helixi379 – 39113
    Beta strandi396 – 4005
    Beta strandi411 – 42111
    Beta strandi425 – 43410
    Helixi439 – 4413
    Beta strandi442 – 45110
    Turni453 – 4553
    Beta strandi458 – 4647
    Helixi470 – 48011
    Helixi481 – 4833
    Beta strandi484 – 4885
    Beta strandi491 – 4944
    Beta strandi499 – 5035
    Beta strandi505 – 5095
    Beta strandi511 – 5133
    Beta strandi516 – 5216
    Beta strandi523 – 5275
    Helixi533 – 5353
    Helixi539 – 5479

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    3GDEX-ray2.30A1-555[»]
    ProteinModelPortaliO29632.
    SMRiO29632. Positions 1-554.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiO29632.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the ATP-dependent DNA ligase family.Curated

    Phylogenomic databases

    eggNOGiCOG1793.
    KOiK10747.
    OMAiARVQVHK.

    Family and domain databases

    Gene3Di1.10.3260.10. 1 hit.
    2.40.50.140. 1 hit.
    HAMAPiMF_00407. DNA_ligase.
    InterProiIPR022865. DNA_ligae_ATP-dep_bac/arc.
    IPR000977. DNA_ligase_ATP-dep.
    IPR012309. DNA_ligase_ATP-dep_C.
    IPR012310. DNA_ligase_ATP-dep_cent.
    IPR016059. DNA_ligase_ATP-dep_CS.
    IPR012308. DNA_ligase_ATP-dep_N.
    IPR012340. NA-bd_OB-fold.
    [Graphical view]
    PfamiPF04679. DNA_ligase_A_C. 1 hit.
    PF01068. DNA_ligase_A_M. 1 hit.
    PF04675. DNA_ligase_A_N. 1 hit.
    [Graphical view]
    SUPFAMiSSF117018. SSF117018. 1 hit.
    SSF50249. SSF50249. 1 hit.
    TIGRFAMsiTIGR00574. dnl1. 1 hit.
    PROSITEiPS00697. DNA_LIGASE_A1. 1 hit.
    PS00333. DNA_LIGASE_A2. 1 hit.
    PS50160. DNA_LIGASE_A3. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    O29632-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLFAEFAEFC ERLEKISSTL ELTARIAAFL QKIEDERDLY DVVLFITGKV    50
    YPPWDERELG VGIGLLYEAL ENVSGVKRSE IESMIREYGD LGLVAEQLIK 100
    KKKMTTLAFE ELTVRKVRET FDEIASLTGE GSMKRKIMLL TGLYGLATPL 150
    EARYLTRLIL NEMRLGVGEG IMRDAIARAF RADPETVERA YMITNDLGRV 200
    AVVAKKEGEE GLRKMKIEIH IPVRMMLAQV AESLESAVRE MRTAAVEWKF 250
    DGSRVQVHWD GSRVTIYSRR LENVTNALPD IVEEIKKSVK PGVILDGEVI 300
    AVKEGKPMPF QHVLRRFRRK HDVAKMVEKI PLEAHFFDIL YHDGECIDLP 350
    LRERRKLLES AVNESEKIKL AKQIVTDSVD EVRKMYDEAI SAGHEGVMIK 400
    LPSSPYIPGK RGKNWLKVKA IMETLDLVVV GGEWGEGKRS HWLSSFELAC 450
    LDPVTGKLLK VGRVATGFTE EDLEELTEMF RPLIVSQQGK KVEFIPKYVF 500
    EVAYQEIQKS PKYESGYALR FPRFVRLRDD KDVDEADTIE RVENLYKLQF 550
    EVKRQ 555
    Length:555
    Mass (Da):63,553
    Last modified:June 20, 2001 - v2
    Checksum:iD050FE80B2341EDB
    GO

    Sequence cautioni

    The sequence AAB90616.1 differs from that shown. Reason: Erroneous initiation.

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000782 Genomic DNA. Translation: AAB90616.1. Different initiation.
    PIRiG69327.
    RefSeqiNP_069457.1. NC_000917.1.
    WP_010878127.1. NC_000917.1.

    Genome annotation databases

    EnsemblBacteriaiAAB90616; AAB90616; AF_0623.
    GeneIDi1483841.
    KEGGiafu:AF0623.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000782 Genomic DNA. Translation: AAB90616.1 . Different initiation.
    PIRi G69327.
    RefSeqi NP_069457.1. NC_000917.1.
    WP_010878127.1. NC_000917.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    3GDE X-ray 2.30 A 1-555 [» ]
    ProteinModelPortali O29632.
    SMRi O29632. Positions 1-554.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 224325.AF0623.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAB90616 ; AAB90616 ; AF_0623 .
    GeneIDi 1483841.
    KEGGi afu:AF0623.

    Phylogenomic databases

    eggNOGi COG1793.
    KOi K10747.
    OMAi ARVQVHK.

    Enzyme and pathway databases

    BioCyci AFUL224325:GJBC-638-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei O29632.

    Family and domain databases

    Gene3Di 1.10.3260.10. 1 hit.
    2.40.50.140. 1 hit.
    HAMAPi MF_00407. DNA_ligase.
    InterProi IPR022865. DNA_ligae_ATP-dep_bac/arc.
    IPR000977. DNA_ligase_ATP-dep.
    IPR012309. DNA_ligase_ATP-dep_C.
    IPR012310. DNA_ligase_ATP-dep_cent.
    IPR016059. DNA_ligase_ATP-dep_CS.
    IPR012308. DNA_ligase_ATP-dep_N.
    IPR012340. NA-bd_OB-fold.
    [Graphical view ]
    Pfami PF04679. DNA_ligase_A_C. 1 hit.
    PF01068. DNA_ligase_A_M. 1 hit.
    PF04675. DNA_ligase_A_N. 1 hit.
    [Graphical view ]
    SUPFAMi SSF117018. SSF117018. 1 hit.
    SSF50249. SSF50249. 1 hit.
    TIGRFAMsi TIGR00574. dnl1. 1 hit.
    PROSITEi PS00697. DNA_LIGASE_A1. 1 hit.
    PS00333. DNA_LIGASE_A2. 1 hit.
    PS50160. DNA_LIGASE_A3. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus."
      Klenk H.-P., Clayton R.A., Tomb J.-F., White O., Nelson K.E., Ketchum K.A., Dodson R.J., Gwinn M.L., Hickey E.K., Peterson J.D., Richardson D.L., Kerlavage A.R., Graham D.E., Kyrpides N.C., Fleischmann R.D., Quackenbush J., Lee N.H., Sutton G.G.
      , Gill S.R., Kirkness E.F., Dougherty B.A., McKenney K., Adams M.D., Loftus B.J., Peterson S.N., Reich C.I., McNeil L.K., Badger J.H., Glodek A., Zhou L., Overbeek R., Gocayne J.D., Weidman J.F., McDonald L.A., Utterback T.R., Cotton M.D., Spriggs T., Artiach P., Kaine B.P., Sykes S.M., Sadow P.W., D'Andrea K.P., Bowman C., Fujii C., Garland S.A., Mason T.M., Olsen G.J., Fraser C.M., Smith H.O., Woese C.R., Venter J.C.
      Nature 390:364-370(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126.

    Entry informationi

    Entry nameiDNLI_ARCFU
    AccessioniPrimary (citable) accession number: O29632
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 15, 1999
    Last sequence update: June 20, 2001
    Last modified: October 1, 2014
    This is version 96 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3