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Q3U4X8

- Q3U4X8_MOUSE

UniProt

Q3U4X8 - Q3U4X8_MOUSE

Protein

DNA ligase

Gene

Lig1

Organism
Mus musculus (Mouse)
Status
Unreviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 82 (01 Oct 2014)
      Sequence version 1 (11 Oct 2005)
      Previous versions | rss
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    Functioni

    Catalytic activityi

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

    GO - Molecular functioni

    1. ATP binding Source: UniProtKB-KW
    2. DNA binding Source: InterPro
    3. DNA ligase (ATP) activity Source: RefGenome

    GO - Biological processi

    1. DNA ligation Source: RefGenome
    2. DNA recombination Source: UniProtKB-KW
    3. DNA repair Source: MGI
    4. DNA replication Source: MGI
    5. double-strand break repair via nonhomologous end joining Source: MGI
    6. lagging strand elongation Source: RefGenome
    7. response to hydrogen peroxide Source: MGI

    Keywords - Molecular functioni

    LigaseUniRule annotation

    Keywords - Biological processi

    DNA damage, DNA recombinationUniRule annotation, DNA repairUniRule annotation, DNA replicationUniRule annotation

    Keywords - Ligandi

    ATP-bindingUniRule annotation, Nucleotide-binding

    Enzyme and pathway databases

    ReactomeiREACT_202316. Gap-filling DNA repair synthesis and ligation in TC-NER.
    REACT_219337. Removal of DNA patch containing abasic residue.
    REACT_223154. Processive synthesis on the C-strand of the telomere.
    REACT_227394. Resolution of AP sites via the multiple-nucleotide patch replacement pathway.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA ligaseUniRule annotation (EC:6.5.1.1UniRule annotation)
    Gene namesi
    Name:Lig1Imported
    OrganismiMus musculus (Mouse)Imported
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 7

    Organism-specific databases

    MGIiMGI:101789. Lig1.

    Subcellular locationi

    GO - Cellular componenti

    1. chromosome Source: RefGenome
    2. mitochondrion Source: RefGenome
    3. nucleus Source: MGI

    Expressioni

    Gene expression databases

    GenevestigatoriQ3U4X8.

    Interactioni

    Protein-protein interaction databases

    STRINGi10090.ENSMUSP00000096411.

    Family & Domainsi

    Sequence similaritiesi

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

    Phylogenomic databases

    GeneTreeiENSGT00750000117745.
    HOGENOMiHOG000036006.
    HOVERGENiHBG005514.
    InParanoidiQ3U4X8.
    KOiK10747.
    OMAiLDPSGYN.
    TreeFamiTF300342.

    Family and domain databases

    Gene3Di1.10.3260.10. 1 hit.
    2.40.50.140. 1 hit.
    InterProiIPR000977. 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.

    Q3U4X8-1 [UniParc]FASTAAdd to Basket

    « Hide

    MRKKEQERKG ETSAANMQRS IMSFFQPTKE GKAKKPEKET PSSIREKEPP    50
    PKVALKERNQ VVPESDSPVK RTGRKVAQVL SCEGEDEDEA PGTPKVQKPV 100
    SDSEQSSPPS PDTCPENSPV FNCSSPMDIS PSGFPKRRTA RKQLPKRTIQ 150
    DTLEEQNEDK TKTAKKRKKE EETPKESLAE AEDVKQKEEK EGDQLIVPSE 200
    PTKSPESVTL TKTENIPVCK AGVKLKPQEE EQSKPPARGA KTLSSFFTPR 250
    KPAVKTEVKQ EESGTLRKEE TKGTLDPANY NPSKNNYHPI EDACWKHGQK 300
    VPFLAVARTF EKIEEVSARL KMVETLSNLL RSVVALSPPD LLPVLYLSLN 350
    RLGPPQQGLE LGVGDGVLLK AVAQATGRQL ESIRAEVAEK GDVGLVAENS 400
    RSTQRLMLPP PPLTISGVFT KFCDIARLTG SASMAKKMDI IKGLFVACRH 450
    SEARYIARSL SGRLRLGLAE QSVLAALAQA VSLTPPGQEF PTAVVDAGKG 500
    KTAEARKMWL EEQGMILKQT FCEVPDLDRI IPVLLEHGLE RLPEHCKLSP 550
    GVPLKPMLAH PTRGVSEVLK RFEEVDFTCE YKYDGQRAQI HVLEGGEVKI 600
    FSRNQEDNTG KYPDIISRIP KIKHPSVTSF ILDTEAVAWD REKKQIQPFQ 650
    VLTTRKRKEV DASEIQVQVC LYAFDLIYLN GESLVRQPLS RRRQLLRENF 700
    VETEGEFVFT TSLDTKDTEQ IAEFLEQSVK DSCEGLMVKT LDVDATYEIA 750
    KRSHNWLKLK KDYLDGVGDT LDLVVIGAYL GRGKRAGRYG GFLLAAYDEE 800
    SEELQAICKL GTGFSDEELE EHHQSLQALV LPTPRPYVRI DGAVAPDHWL 850
    DPSIVWEVKC ADLSLSPIYP AARGLVDKEK GISLRFPRFI RVRKDKQPEQ 900
    ATTSNQVASL YRKQSQIQNQ QSSDLDSDVE DY 932
    Length:932
    Mass (Da):104,093
    Last modified:October 11, 2005 - v1
    Checksum:iBAC3966B2D3D523A
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AC161792 Genomic DNA. No translation available.
    BC138541 mRNA. Translation: AAI38542.1.
    BC138542 mRNA. Translation: AAI38543.1.
    AK153993 mRNA. Translation: BAE32302.1.
    RefSeqiNP_001076657.1. NM_001083188.1.
    NP_001186239.1. NM_001199310.1.
    NP_034845.2. NM_010715.2.
    UniGeneiMm.288179.
    Mm.421129.

    Genome annotation databases

    EnsembliENSMUST00000098814; ENSMUSP00000096411; ENSMUSG00000056394.
    ENSMUST00000165964; ENSMUSP00000126525; ENSMUSG00000056394.
    ENSMUST00000177588; ENSMUSP00000136972; ENSMUSG00000056394.
    GeneIDi16881.
    KEGGimmu:16881.
    UCSCiuc009ffq.1. mouse.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AC161792 Genomic DNA. No translation available.
    BC138541 mRNA. Translation: AAI38542.1 .
    BC138542 mRNA. Translation: AAI38543.1 .
    AK153993 mRNA. Translation: BAE32302.1 .
    RefSeqi NP_001076657.1. NM_001083188.1.
    NP_001186239.1. NM_001199310.1.
    NP_034845.2. NM_010715.2.
    UniGenei Mm.288179.
    Mm.421129.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 10090.ENSMUSP00000096411.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000098814 ; ENSMUSP00000096411 ; ENSMUSG00000056394 .
    ENSMUST00000165964 ; ENSMUSP00000126525 ; ENSMUSG00000056394 .
    ENSMUST00000177588 ; ENSMUSP00000136972 ; ENSMUSG00000056394 .
    GeneIDi 16881.
    KEGGi mmu:16881.
    UCSCi uc009ffq.1. mouse.

    Organism-specific databases

    CTDi 3978.
    MGIi MGI:101789. Lig1.

    Phylogenomic databases

    GeneTreei ENSGT00750000117745.
    HOGENOMi HOG000036006.
    HOVERGENi HBG005514.
    InParanoidi Q3U4X8.
    KOi K10747.
    OMAi LDPSGYN.
    TreeFami TF300342.

    Enzyme and pathway databases

    Reactomei REACT_202316. Gap-filling DNA repair synthesis and ligation in TC-NER.
    REACT_219337. Removal of DNA patch containing abasic residue.
    REACT_223154. Processive synthesis on the C-strand of the telomere.
    REACT_227394. Resolution of AP sites via the multiple-nucleotide patch replacement pathway.

    Miscellaneous databases

    NextBioi 290882.
    SOURCEi Search...

    Gene expression databases

    Genevestigatori Q3U4X8.

    Family and domain databases

    Gene3Di 1.10.3260.10. 1 hit.
    2.40.50.140. 1 hit.
    InterProi 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. "High-efficiency full-length cDNA cloning."
      Carninci P., Hayashizaki Y.
      Methods Enzymol. 303:19-44(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE.
      Strain: NODImported.
      Tissue: ThymusImported.
    2. "Normalization and subtraction of cap-trapper-selected cDNAs to prepare full-length cDNA libraries for rapid discovery of new genes."
      Carninci P., Shibata Y., Hayatsu N., Sugahara Y., Shibata K., Itoh M., Konno H., Okazaki Y., Muramatsu M., Hayashizaki Y.
      Genome Res. 10:1617-1630(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE.
      Strain: NODImported.
      Tissue: ThymusImported.
    3. Cited for: NUCLEOTIDE SEQUENCE.
      Strain: NODImported.
      Tissue: ThymusImported.
    4. "Functional annotation of a full-length mouse cDNA collection."
      The RIKEN Genome Exploration Research Group Phase II Team and the FANTOM Consortium
      Nature 409:685-690(2001)
      Cited for: NUCLEOTIDE SEQUENCE.
      Strain: NODImported.
      Tissue: ThymusImported.
    5. "Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs."
      The FANTOM Consortium and the RIKEN Genome Exploration Research Group Phase I and II Team
      Nature 420:563-573(2002)
      Cited for: NUCLEOTIDE SEQUENCE.
      Strain: NODImported.
      Tissue: ThymusImported.
    6. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
      The MGC Project Team
      Gerhard D.S., Wagner L., Feingold E.A., Shenmen C.M., Grouse L.H., Schuler G., Klein S.L., Old S., Rasooly R., Good P., Guyer M., Peck A.M., Derge J.G., Lipman D., Collins F.S., Jang W., Sherry S., Feolo M.
      , Misquitta L., Lee E., Rotmistrovsky K., Greenhut S.F., Schaefer C.F., Buetow K., Bonner T.I., Haussler D., Kent J., Kiekhaus M., Furey T., Brent M., Prange C., Schreiber K., Shapiro N., Bhat N.K., Hopkins R.F., Hsie F., Driscoll T., Soares M.B., Casavant T.L., Scheetz T.E., Brown-stein M.J., Usdin T.B., Toshiyuki S., Carninci P., Piao Y., Dudekula D.B., Ko M.S., Kawakami K., Suzuki Y., Sugano S., Gruber C.E., Smith M.R., Simmons B., Moore T., Waterman R., Johnson S.L., Ruan Y., Wei C.L., Mathavan S., Gunaratne P.H., Wu J., Garcia A.M., Hulyk S.W., Fuh E., Yuan Y., Sneed A., Kowis C., Hodgson A., Muzny D.M., McPherson J., Gibbs R.A., Fahey J., Helton E., Ketteman M., Madan A., Rodrigues S., Sanchez A., Whiting M., Madari A., Young A.C., Wetherby K.D., Granite S.J., Kwong P.N., Brinkley C.P., Pearson R.L., Bouffard G.G., Blakesly R.W., Green E.D., Dickson M.C., Rodriguez A.C., Grimwood J., Schmutz J., Myers R.M., Butterfield Y.S., Griffith M., Griffith O.L., Krzywinski M.I., Liao N., Morin R., Morrin R., Palmquist D., Petrescu A.S., Skalska U., Smailus D.E., Stott J.M., Schnerch A., Schein J.E., Jones S.J., Holt R.A., Baross A., Marra M.A., Clifton S., Makowski K.A., Bosak S., Malek J.
      Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: BrainImported.
    7. Cited for: NUCLEOTIDE SEQUENCE.
      Strain: NODImported.
      Tissue: ThymusImported.
    8. "The Transcriptional Landscape of the Mammalian Genome."
      The FANTOM Consortium, Riken Genome Exploration Research Group and Genome Science Group (Genome Network Project Core Group)
      Science 309:1559-1563(2005)
      Cited for: NUCLEOTIDE SEQUENCE.
      Strain: NODImported.
      Tissue: ThymusImported.
    9. Cited for: NUCLEOTIDE SEQUENCE.
      Strain: NODImported.
      Tissue: ThymusImported.
    10. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    11. "The phagosomal proteome in interferon-gamma-activated macrophages."
      Trost M., English L., Lemieux S., Courcelles M., Desjardins M., Thibault P.
      Immunity 30:143-154(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    12. "Large scale localization of protein phosphorylation by use of electron capture dissociation mass spectrometry."
      Sweet S.M., Bailey C.M., Cunningham D.L., Heath J.K., Cooper H.J.
      Mol. Cell. Proteomics 8:904-912(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    13. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: C57BL/6JImported.
    14. Ensembl
      Submitted (FEB-2012) to UniProtKB
      Cited for: IDENTIFICATION.
      Strain: C57BL/6JImported.
    15. Ensembl
      Submitted (AUG-2012) to UniProtKB
      Cited for: IDENTIFICATION.
      Strain: C57BL/6JImported.
    16. "SIRT5-mediated lysine desuccinylation impacts diverse metabolic pathways."
      Park J., Chen Y., Tishkoff D.X., Peng C., Tan M., Dai L., Xie Z., Zhang Y., Zwaans B.M., Skinner M.E., Lombard D.B., Zhao Y.
      Mol. Cell 50:919-930(2013) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

    Entry informationi

    Entry nameiQ3U4X8_MOUSE
    AccessioniPrimary (citable) accession number: Q3U4X8
    Entry historyi
    Integrated into UniProtKB/TrEMBL: October 11, 2005
    Last sequence update: October 11, 2005
    Last modified: October 1, 2014
    This is version 82 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