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A3MS62

- DNLI_PYRCJ

UniProt

A3MS62 - DNLI_PYRCJ

Protein

DNA ligase

Gene

lig

Organism
Pyrobaculum calidifontis (strain JCM 11548 / VA1)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 54 (01 Oct 2014)
      Sequence version 1 (03 Apr 2007)
      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 sitei249 – 2491ATPUniRule annotation
    Active sitei251 – 2511N6-AMP-lysine intermediateUniRule annotation
    Binding sitei256 – 2561ATPUniRule annotation
    Binding sitei271 – 2711ATPUniRule annotation
    Binding sitei301 – 3011ATPUniRule annotation
    Binding sitei341 – 3411ATPUniRule annotation
    Binding sitei416 – 4161ATPUniRule annotation
    Binding sitei422 – 4221ATPUniRule annotation

    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

    BioCyciPCAL410359:GIX2-39-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:Pcal_0039
    OrganismiPyrobaculum calidifontis (strain JCM 11548 / VA1)
    Taxonomic identifieri410359 [NCBI]
    Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiThermoprotealesThermoproteaceaePyrobaculum
    ProteomesiUP000001431: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 583583DNA ligasePRO_1000049876Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi410359.Pcal_0039.

    Structurei

    3D structure databases

    ProteinModelPortaliA3MS62.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

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

    Phylogenomic databases

    eggNOGiCOG1793.
    HOGENOMiHOG000036008.
    KOiK10747.
    OMAiLDPSGYN.

    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.
    PS50160. DNA_LIGASE_A3. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    A3MS62-1 [UniParc]FASTAAdd to Basket

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    MQFGELAKVL AAVESTTQRT TMVKLLTSLF KKAKPEEIDK IVYFILGDLR    50
    PPWEGVELGV AEKLCIRAIS KATGLSAAEL EGWYKKSGDV GEVARRALAA 100
    GKRPTLLAFA QQKPLEVAEV YDTLLKVAKA AGEGAQDLKV SLLSSLFSRA 150
    SPEEAKYIAR FVVGKLRLGV ADMTLIEALS EAFGVSKEGL ERAYHVYPDL 200
    GRLARHVAEG RPLEEIKITP GVPVLPMLAQ RLSSASEILA KLGGTAICEY 250
    KYDGERAQIH LREGSVKIFS RRLEDITHAY PDVAKAVKEA VKAREAILEG 300
    EIVAVDPDTG EMLPFQELMH RKRKHDVAEA MEAYPAVLYL FDLLYVDGED 350
    LTTQPLIYRR LRLSEVVEEG GDVYIAKWGM FDGAEDVDLF FHEAVSLGTE 400
    GLICKSPTST YEMGARGWNW IKYKRDYRSE MIDTVDLVVV GAFHGRGKRA 450
    GLYGAFLLAA YDPSTDMFYT VCKVGSGFTD ADLRRMYDML QPLKIPHRHP 500
    RVVSKMQPDV WFVPQVVIEV IGAEITLSPL HTCCIGAVKP GVGLAIRFPR 550
    FTGRYRTDKR PEDATTTKEL VEMYQRQKKV PTT 583
    Length:583
    Mass (Da):64,840
    Last modified:April 3, 2007 - v1
    Checksum:i3B3B4E318FC2C215
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000561 Genomic DNA. Translation: ABO07479.1.
    RefSeqiYP_001054945.1. NC_009073.1.

    Genome annotation databases

    EnsemblBacteriaiABO07479; ABO07479; Pcal_0039.
    GeneIDi4908550.
    KEGGipcl:Pcal_0039.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000561 Genomic DNA. Translation: ABO07479.1 .
    RefSeqi YP_001054945.1. NC_009073.1.

    3D structure databases

    ProteinModelPortali A3MS62.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 410359.Pcal_0039.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ABO07479 ; ABO07479 ; Pcal_0039 .
    GeneIDi 4908550.
    KEGGi pcl:Pcal_0039.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci PCAL410359:GIX2-39-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.
    PS50160. DNA_LIGASE_A3. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: JCM 11548 / VA1.

    Entry informationi

    Entry nameiDNLI_PYRCJ
    AccessioniPrimary (citable) accession number: A3MS62
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 15, 2008
    Last sequence update: April 3, 2007
    Last modified: October 1, 2014
    This is version 54 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3