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D3E0Q0

- D3E0Q0_METRM

UniProt

D3E0Q0 - D3E0Q0_METRM

Protein

DNA ligase

Gene

dnll

Organism
Methanobrevibacter ruminantium (strain ATCC 35063 / DSM 1093 / JCM 13430 / M1) (Methanobacterium ruminantium)
Status
Unreviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 30 (01 Oct 2014)
      Sequence version 1 (23 Mar 2010)
      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 sitei246 – 2461ATPUniRule annotation
    Active sitei248 – 2481N6-AMP-lysine intermediateUniRule annotation
    Binding sitei253 – 2531ATPUniRule annotation
    Binding sitei268 – 2681ATPUniRule annotation
    Binding sitei298 – 2981ATPUniRule annotation
    Binding sitei414 – 4141ATPUniRule annotation
    Binding sitei420 – 4201ATPUniRule 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

    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

    BioCyciMRUM634498:GHDG-468-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:dnllImported
    Synonyms:ligUniRule annotation
    Ordered Locus Names:mru_0445Imported
    OrganismiMethanobrevibacter ruminantium (strain ATCC 35063 / DSM 1093 / JCM 13430 / M1) (Methanobacterium ruminantium)Imported
    Taxonomic identifieri634498 [NCBI]
    Taxonomic lineageiArchaeaEuryarchaeotaMethanobacteriaMethanobacterialesMethanobacteriaceaeMethanobrevibacter
    ProteomesiUP000008680: Chromosome

    Structurei

    3D structure databases

    ProteinModelPortaliD3E0Q0.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

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

    Phylogenomic databases

    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.

    D3E0Q0-1 [UniParc]FASTAAdd to Basket

    « Hide

    MKYEELVNVY EALGATTKRL EKTEILADFL KTVELEDLQK ITLMALGRVF    50
    PPWSEEEQGI GDKLVMKAVG DAVGVSVAVV EDAIRDEGDI GAAAEKLYGK 100
    KTQMTFFSQP LTVNFVYNQL RKLAKITGNR STAKKISNIL ELLSSASALE 150
    AKYICRTILE ELRIGVGEGI IRDAISQAFG VDKALAERAH MLTNDLGLVA 200
    KVAKEEGEDG LKKLSLIPGR PVKPMLAQLS EGIEISINEM GCALCETKYD 250
    GIRMQVHKKD DEITIFTRRL ENVTMALPEA VDLIREAFPD EDFIAEGEII 300
    AIRDGKPTTF QNILQRVRRK HNIEEAMEKV PIKIYLYDLL YFKEPTIDEP 350
    IIKRREILES VVDCSNPNLA LSSLVKVGPD NIDDAVDLFN KSIEGGHEGI 400
    MIKDCDEPYI PGIRGKKMLK LKAEPETLDA VVIGGVKGIG KRGDFIGSYV 450
    IALRDENDQL QPIAHVGTGL SDDDLANLTE KMEALKITEK GTRITVHPKI 500
    VFEIAYSEIV KSPEYSAGYS LRFPVVKRIR DDKGVDDIDT IERLESMFKG 550
    Length:550
    Mass (Da):61,113
    Last modified:March 23, 2010 - v1
    Checksum:i5C33843B98B80B05
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001719 Genomic DNA. Translation: ADC46296.1.
    RefSeqiYP_003423188.1. NC_013790.1.

    Genome annotation databases

    EnsemblBacteriaiADC46296; ADC46296; mru_0445.
    GeneIDi8770085.
    KEGGimru:mru_0445.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001719 Genomic DNA. Translation: ADC46296.1 .
    RefSeqi YP_003423188.1. NC_013790.1.

    3D structure databases

    ProteinModelPortali D3E0Q0.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ADC46296 ; ADC46296 ; mru_0445 .
    GeneIDi 8770085.
    KEGGi mru:mru_0445.

    Phylogenomic databases

    HOGENOMi HOG000036008.
    KOi K10747.
    OMAi ARVQVHK.

    Enzyme and pathway databases

    BioCyci MRUM634498:GHDG-468-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. "The genome sequence of the rumen methanogen Methanobrevibacter ruminantium reveals new possibilities for controlling ruminant methane emissions."
      Leahy S.C., Kelly W.J., Altermann E., Ronimus R.S., Yeoman C.J., Pacheco D.M., Li D., Kong Z., McTavish S., Sang C., Lambie S.C., Janssen P.H., Dey D., Attwood G.T.
      PLoS ONE 5:E8926-E8926(2010) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 35063 / DSM 1093 / JCM 13430 / M1Imported.

    Entry informationi

    Entry nameiD3E0Q0_METRM
    AccessioniPrimary (citable) accession number: D3E0Q0
    Entry historyi
    Integrated into UniProtKB/TrEMBL: March 23, 2010
    Last sequence update: March 23, 2010
    Last modified: October 1, 2014
    This is version 30 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiUnreviewed (UniProtKB/TrEMBL)

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteomeImported

    External Data

    Dasty 3