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Protein
Submitted name:

DNA ligase 1

Gene

Lig1

Organism
Mus musculus (Mouse)
Status
Unreviewed-Annotation score: 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: GO_Central
  4. DNA ligase activity Source: MGI

GO - Biological processi

  1. base-excision repair Source: MGI
  2. DNA biosynthetic process Source: InterPro
  3. DNA ligation Source: GO_Central
  4. DNA recombination Source: UniProtKB-KW
  5. DNA repair Source: MGI
  6. DNA replication Source: MGI
  7. double-strand break repair via nonhomologous end joining Source: MGI
  8. lagging strand elongation Source: GO_Central
  9. 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_276436. Processive synthesis on the lagging strand.
REACT_278371. Processive synthesis on the C-strand of the telomere.
REACT_280617. Resolution of D-loop structures through Holliday junction intermediates.
REACT_314071. Gap-filling DNA repair synthesis and ligation in GG-NER.
REACT_320650. Mismatch repair (MMR) directed by MSH2:MSH6 (MutSalpha).
REACT_320897. Gap-filling DNA repair synthesis and ligation in TC-NER.
REACT_326745. Removal of DNA patch containing abasic residue.
REACT_331202. Mismatch repair (MMR) directed by MSH2:MSH3 (MutSbeta).
REACT_337003. Resolution of AP sites via the multiple-nucleotide patch replacement pathway.

Names & Taxonomyi

Protein namesi
Submitted name:
DNA ligase 1Imported
Submitted name:
Lig1 proteinImported
Gene namesi
Name:Lig1Imported
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589 Componenti: Chromosome 7

Organism-specific databases

MGIiMGI:101789. Lig1.

Subcellular locationi

GO - Cellular componenti

  1. chromosome Source: GO_Central
  2. Golgi apparatus Source: MGI
  3. intracellular membrane-bounded organelle Source: MGI
  4. mitochondrion Source: GO_Central
  5. nucleoplasm Source: MGI
  6. nucleus Source: MGI
Complete GO annotation...

PTM / Processingi

Proteomic databases

MaxQBiQ3U4X8.
PRIDEiQ3U4X8.

Expressioni

Gene expression databases

BgeeiQ3U4X8.
ExpressionAtlasiQ3U4X8. baseline and differential.
GenevestigatoriQ3U4X8.

Interactioni

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000096411.

Structurei

3D structure databases

ProteinModelPortaliQ3U4X8.
SMRiQ3U4X8. Positions 276-915.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

GeneTreeiENSGT00780000121970.
HOGENOMiHOG000036006.
HOVERGENiHBG005514.
KOiK10747.
OMAiPQVVIEV.
PhylomeDBiQ3U4X8.
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

        10         20         30         40         50
MRKKEQERKG ETSAANMQRS IMSFFQPTKE GKAKKPEKET PSSIREKEPP
60 70 80 90 100
PKVALKERNQ VVPESDSPVK RTGRKVAQVL SCEGEDEDEA PGTPKVQKPV
110 120 130 140 150
SDSEQSSPPS PDTCPENSPV FNCSSPMDIS PSGFPKRRTA RKQLPKRTIQ
160 170 180 190 200
DTLEEQNEDK TKTAKKRKKE EETPKESLAE AEDVKQKEEK EGDQLIVPSE
210 220 230 240 250
PTKSPESVTL TKTENIPVCK AGVKLKPQEE EQSKPPARGA KTLSSFFTPR
260 270 280 290 300
KPAVKTEVKQ EESGTLRKEE TKGTLDPANY NPSKNNYHPI EDACWKHGQK
310 320 330 340 350
VPFLAVARTF EKIEEVSARL KMVETLSNLL RSVVALSPPD LLPVLYLSLN
360 370 380 390 400
RLGPPQQGLE LGVGDGVLLK AVAQATGRQL ESIRAEVAEK GDVGLVAENS
410 420 430 440 450
RSTQRLMLPP PPLTISGVFT KFCDIARLTG SASMAKKMDI IKGLFVACRH
460 470 480 490 500
SEARYIARSL SGRLRLGLAE QSVLAALAQA VSLTPPGQEF PTAVVDAGKG
510 520 530 540 550
KTAEARKMWL EEQGMILKQT FCEVPDLDRI IPVLLEHGLE RLPEHCKLSP
560 570 580 590 600
GVPLKPMLAH PTRGVSEVLK RFEEVDFTCE YKYDGQRAQI HVLEGGEVKI
610 620 630 640 650
FSRNQEDNTG KYPDIISRIP KIKHPSVTSF ILDTEAVAWD REKKQIQPFQ
660 670 680 690 700
VLTTRKRKEV DASEIQVQVC LYAFDLIYLN GESLVRQPLS RRRQLLRENF
710 720 730 740 750
VETEGEFVFT TSLDTKDTEQ IAEFLEQSVK DSCEGLMVKT LDVDATYEIA
760 770 780 790 800
KRSHNWLKLK KDYLDGVGDT LDLVVIGAYL GRGKRAGRYG GFLLAAYDEE
810 820 830 840 850
SEELQAICKL GTGFSDEELE EHHQSLQALV LPTPRPYVRI DGAVAPDHWL
860 870 880 890 900
DPSIVWEVKC ADLSLSPIYP AARGLVDKEK GISLRFPRFI RVRKDKQPEQ
910 920 930
ATTSNQVASL YRKQSQIQNQ QSSDLDSDVE DY
Length:932
Mass (Da):104,093
Last modified:October 10, 2005 - v1
Checksum:iBAC3966B2D3D523A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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.

3D structure databases

ProteinModelPortaliQ3U4X8.
SMRiQ3U4X8. Positions 276-915.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000096411.

Proteomic databases

MaxQBiQ3U4X8.
PRIDEiQ3U4X8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Organism-specific databases

CTDi3978.
MGIiMGI:101789. Lig1.

Phylogenomic databases

GeneTreeiENSGT00780000121970.
HOGENOMiHOG000036006.
HOVERGENiHBG005514.
KOiK10747.
OMAiPQVVIEV.
PhylomeDBiQ3U4X8.
TreeFamiTF300342.

Enzyme and pathway databases

ReactomeiREACT_276436. Processive synthesis on the lagging strand.
REACT_278371. Processive synthesis on the C-strand of the telomere.
REACT_280617. Resolution of D-loop structures through Holliday junction intermediates.
REACT_314071. Gap-filling DNA repair synthesis and ligation in GG-NER.
REACT_320650. Mismatch repair (MMR) directed by MSH2:MSH6 (MutSalpha).
REACT_320897. Gap-filling DNA repair synthesis and ligation in TC-NER.
REACT_326745. Removal of DNA patch containing abasic residue.
REACT_331202. Mismatch repair (MMR) directed by MSH2:MSH3 (MutSbeta).
REACT_337003. Resolution of AP sites via the multiple-nucleotide patch replacement pathway.

Miscellaneous databases

NextBioi290882.
SOURCEiSearch...

Gene expression databases

BgeeiQ3U4X8.
ExpressionAtlasiQ3U4X8. baseline and differential.
GenevestigatoriQ3U4X8.

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]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "High-efficiency full-length cDNA cloning."
    Carninci P., Hayashizaki Y.
    Methods Enzymol. 303:19-44(1998) [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(1999) [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(2000)
    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(2001)
    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(2003) [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(2004)
    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(2008) [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(2008) [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 (JAN-2012) to UniProtKB
    Cited for: IDENTIFICATION.
    Strain: C57BL/6JImported.
  15. Ensembl
    Submitted (JUL-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(2012) [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 10, 2005
Last sequence update: October 10, 2005
Last modified: March 31, 2015
This is version 88 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.