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Q3U4X8

- Q3U4X8_MOUSE

UniProt

Q3U4X8 - Q3U4X8_MOUSE

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Protein

DNA ligase

Gene
Lig1
Organism
Mus musculus (Mouse)
Status
Unreviewed - Annotation score: 4 out of 5 - Experimental evidence at protein leveli

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
Complete GO annotation...

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
OrganismiMus musculus (Mouse)
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
Complete GO annotation...

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

« Hide 'large scale' publications
  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: September 3, 2014
This is version 81 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

External Data

Dasty 3

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