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C6A2U9

- C6A2U9_THESM

UniProt

C6A2U9 - C6A2U9_THESM

Protein

DNA ligase

Gene

lig

Organism
Thermococcus sibiricus (strain MM 739 / DSM 12597)
Status
Unreviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 38 (01 Oct 2014)
      Sequence version 1 (01 Sep 2009)
      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.UniRule annotation

    Catalytic activityi

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

    Cofactori

    Divalent metal cations.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei248 – 2481ATPUniRule annotation
    Active sitei250 – 2501N6-AMP-lysine intermediateUniRule annotation
    Binding sitei255 – 2551ATPUniRule annotation
    Binding sitei270 – 2701AMPImported
    Binding sitei270 – 2701ATPUniRule annotation
    Binding sitei300 – 3001AMPImported
    Binding sitei300 – 3001ATPUniRule annotation
    Binding sitei340 – 3401AMPImported
    Binding sitei340 – 3401ATPUniRule annotation
    Binding sitei404 – 4041AMPImported
    Binding sitei415 – 4151AMPImported
    Binding sitei415 – 4151ATPUniRule annotation
    Binding sitei421 – 4211ATPUniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi248 – 2514AMPImported

    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

    LigaseUniRule annotationImported

    Keywords - Biological processi

    Cell cycle, Cell divisionUniRule annotation, DNA damage, DNA recombinationUniRule annotation, DNA repairUniRule annotation, DNA replicationUniRule annotation

    Keywords - Ligandi

    ATP-bindingUniRule annotation, Metal-bindingUniRule annotation, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciTSIB604354:GHMS-909-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA ligaseUniRule annotation (EC:6.5.1.1UniRule annotation)
    Alternative name(s):
    Polydeoxyribonucleotide synthase [ATP]UniRule annotation
    Gene namesi
    Name:ligUniRule annotation
    Ordered Locus Names:TSIB_0885Imported
    OrganismiThermococcus sibiricus (strain MM 739 / DSM 12597)Imported
    Taxonomic identifieri604354 [NCBI]
    Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaeThermococcus
    ProteomesiUP000009079: Chromosome

    Interactioni

    Protein-protein interaction databases

    STRINGi604354.TSIB_0885.

    Structurei

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4EQ5X-ray2.85A2-560[»]
    ProteinModelPortaliC6A2U9.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the ATP-dependent DNA ligase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG1793.
    HOGENOMiHOG000036008.
    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.

    C6A2U9-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLYKELVELY KRLEKTTLKT LKTKFVSDFL KSVEKPELLE VIPYLILGKV    50
    FPDWDERELG IGEKLLIKAV SMATGINSEE IENSVRDTGD LGESIALALN 100
    KRKQKSFFSQ PLTIERVYNT LVKIAEASGA GSQDRKLKYL ANLFMDASPD 150
    EGKYLARTVL GIMRTGVAEG LLRDALADAF KVRVELVERA YMLTSDFGFV 200
    AKVAKLEGDE GLAKVKIQVG KPIKPMLAQM AANVREALVE MGGEAEFEIK 250
    YDGARVQVHK NGNKVLIYSR RLENVTKSIP EVVERVKEAL KPEKVIVEGE 300
    LVAVEETGRP RPFQYVLRRF RRKYNIEEMI EKIPLELNLF DILYVDGQNM 350
    IDTPFMERRK VLESVVNSNE WIKSAENLIT KSPEEAEAFY HKALDLGHEG 400
    LMAKRLDSTY EPGNRGKKWL KIKPTMENLD LVVLGAEWGE GRRSGVLSSF 450
    LLGAYDPVKG DFVPVGKVGS GFTDEDLVEF TKMLKPLIKK EHGKEVELEP 500
    KVVIEVAYQE IQKSPKYESG FALRFPRYIA LREDKGPEDA DTVQRLAELY 550
    QFQERLKGGR 560
    Length:560
    Mass (Da):63,448
    Last modified:September 1, 2009 - v1
    Checksum:i3B20F1C68A04EDA8
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001463 Genomic DNA. Translation: ACS89944.1.
    RefSeqiYP_002994293.1. NC_012883.1.

    Genome annotation databases

    EnsemblBacteriaiACS89944; ACS89944; TSIB_0885.
    GeneIDi8095876.
    KEGGitsi:TSIB_0885.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001463 Genomic DNA. Translation: ACS89944.1 .
    RefSeqi YP_002994293.1. NC_012883.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    4EQ5 X-ray 2.85 A 2-560 [» ]
    ProteinModelPortali C6A2U9.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 604354.TSIB_0885.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACS89944 ; ACS89944 ; TSIB_0885 .
    GeneIDi 8095876.
    KEGGi tsi:TSIB_0885.

    Phylogenomic databases

    eggNOGi COG1793.
    HOGENOMi HOG000036008.
    KOi K10747.
    OMAi ARVQVHK.

    Enzyme and pathway databases

    BioCyci TSIB604354:GHMS-909-MONOMER.

    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. "Metabolic versatility and indigenous origin of the archaeon Thermococcus sibiricus, isolated from a siberian oil reservoir, as revealed by genome analysis."
      Mardanov A.V., Ravin N.V., Svetlitchnyi V.A., Beletsky A.V., Miroshnichenko M.L., Bonch-Osmolovskaya E.A., Skryabin K.G.
      Appl. Environ. Microbiol. 75:4580-4588(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: MM 739 / DSM 12597Imported.
    2. "Expression, purification, crystallization and preliminary crystallographic analysis of a thermostable DNA ligase from the archaeon Thermococcus sibiricus."
      Petrova T.E., Bezsudnova E.Y., Dorokhov B.D., Slutskaya E.S., Polyakov K.M., Dorovatovskiy P.V., Ravin N.V., Skryabin K.G., Kovalchuk M.V., Popov V.O.
      Acta Crystallogr. F 68:163-165(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.85 ANGSTROMS) OF 2-560 IN COMPLEX WITH AMP.

    Entry informationi

    Entry nameiC6A2U9_THESM
    AccessioniPrimary (citable) accession number: C6A2U9
    Entry historyi
    Integrated into UniProtKB/TrEMBL: September 1, 2009
    Last sequence update: September 1, 2009
    Last modified: October 1, 2014
    This is version 38 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiUnreviewed (UniProtKB/TrEMBL)

    Miscellaneousi

    Keywords - Technical termi

    3D-structureImported, Complete proteomeImported

    External Data

    Dasty 3