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Q5YNY7

- DNLI_NOCFA

UniProt

Q5YNY7 - DNLI_NOCFA

Protein

Probable DNA ligase

Gene

lig

Organism
Nocardia farcinica (strain IFM 10152)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 78 (01 Oct 2014)
      Sequence version 1 (23 Nov 2004)
      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 sitei210 – 2101ATPUniRule annotation
    Active sitei212 – 2121N6-AMP-lysine intermediateUniRule annotation
    Binding sitei217 – 2171ATPUniRule annotation
    Binding sitei232 – 2321ATPUniRule annotation
    Binding sitei261 – 2611ATPUniRule annotation
    Binding sitei317 – 3171ATPUniRule annotation
    Binding sitei388 – 3881ATPUniRule annotation
    Binding sitei394 – 3941ATPUniRule 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

    BioCyciNFAR247156:GJ9T-5323-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Probable 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:NFA_52520
    OrganismiNocardia farcinica (strain IFM 10152)
    Taxonomic identifieri247156 [NCBI]
    Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeActinomycetalesCorynebacterineaeNocardiaceaeNocardia
    ProteomesiUP000006820: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 523523Probable DNA ligasePRO_0000365235Add
    BLAST

    Proteomic databases

    PRIDEiQ5YNY7.

    Interactioni

    Protein-protein interaction databases

    STRINGi247156.nfa52520.

    Structurei

    3D structure databases

    ProteinModelPortaliQ5YNY7.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

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

    Phylogenomic databases

    eggNOGiCOG1793.
    KOiK01971.
    OMAiIQSSPRY.
    OrthoDBiEOG6Q8HXT.

    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. 2 hits.
    [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.

    Q5YNY7-1 [UniParc]FASTAAdd to Basket

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    MLFADVVRTS EAVRATRSRK TKVAALAELL RAAESAELAP VVAWLSGELR    50
    QGRIGTGWRT LTGVRVPPAL DAALEVATVD AIFDELAAVS GAGSGNRRKE 100
    LLTRLWSAAT EPEQEFLLRL LTGELRQGAL TALVAEAVAA AADVPVEQVR 150
    RAYMLSGQLP VTAEAALRGG AAALAEFRLE VGRPIQPMLA APGASLEEAM 200
    TEFGGEVSVE HKLDGARIQV HRDGDRIAVF TRTLRDITAG VPELVELVAR 250
    LDCTSVVLDG ETLALTDAGR PRPFQETMSR FATADPARAA EVDLPPGTPV 300
    VPPVSSTREL LLHPYFFDCL HLDGRDLLDA PLSERRAALL AVVGEHAIPA 350
    LIRPEPEAAA EYFDGALAAG HEGLMVKSLS APYAAGRRGR SWQKIKPTHT 400
    LDLLVLGAEW GYGRRTGYLS NLHLGARDPR TGEPVMVGKT FKGLTDALLA 450
    WQTAEFPRHE RARDEHTVYL WPELVVEIAL DGVQVSPRYP GGVALRFARV 500
    VRYRPDKTPD QADTIDTVRG LLP 523
    Length:523
    Mass (Da):56,457
    Last modified:November 23, 2004 - v1
    Checksum:i398B9736FF4F94BA
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP006618 Genomic DNA. Translation: BAD60104.1.
    RefSeqiWP_011211786.1. NC_006361.1.
    YP_121468.1. NC_006361.1.

    Genome annotation databases

    EnsemblBacteriaiBAD60104; BAD60104; NFA_52520.
    GeneIDi3110671.
    KEGGinfa:nfa52520.
    PATRICi22740091. VBINocFar94200_5264.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP006618 Genomic DNA. Translation: BAD60104.1 .
    RefSeqi WP_011211786.1. NC_006361.1.
    YP_121468.1. NC_006361.1.

    3D structure databases

    ProteinModelPortali Q5YNY7.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 247156.nfa52520.

    Proteomic databases

    PRIDEi Q5YNY7.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAD60104 ; BAD60104 ; NFA_52520 .
    GeneIDi 3110671.
    KEGGi nfa:nfa52520.
    PATRICi 22740091. VBINocFar94200_5264.

    Phylogenomic databases

    eggNOGi COG1793.
    KOi K01971.
    OMAi IQSSPRY.
    OrthoDBi EOG6Q8HXT.

    Enzyme and pathway databases

    BioCyci NFAR247156:GJ9T-5323-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. 2 hits.
    [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: IFM 10152.

    Entry informationi

    Entry nameiDNLI_NOCFA
    AccessioniPrimary (citable) accession number: Q5YNY7
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 3, 2009
    Last sequence update: November 23, 2004
    Last modified: October 1, 2014
    This is version 78 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, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3