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Protein

DNA ligase

Gene

Lig3

Organism
Rattus norvegicus (Rat)
Status
Unreviewed-Annotation score: Annotation score: 3 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

  • ATP binding Source: UniProtKB-KW
  • DNA binding Source: InterPro
  • DNA ligase (ATP) activity Source: GO_Central
  • DNA ligase activity Source: RGD
  • zinc ion binding Source: InterPro

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

LigaseUniRule annotationImported

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

ReactomeiR-RNO-110381. Resolution of AP sites via the single-nucleotide replacement pathway.
R-RNO-5649702. APEX1-Independent Resolution of AP Sites via the Single Nucleotide Replacement Pathway.
R-RNO-5685939. HDR through MMEJ (alt-NHEJ).
R-RNO-6782210. Gap-filling DNA repair synthesis and ligation in TC-NER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA ligaseUniRule annotation (EC:6.5.1.1UniRule annotation)
Gene namesi
Name:Lig3Imported
OrganismiRattus norvegicus (Rat)Imported
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 10

Organism-specific databases

RGDi1309875. Lig3.

Subcellular locationi

GO - Cellular componenti

  • mitochondrion Source: GO_Central
  • nucleus Source: RGD
Complete GO annotation...

Expressioni

Gene expression databases

BgeeiENSRNOG00000021815.

Interactioni

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000052836.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini94 – 186PARP-typeInterPro annotationAdd BLAST93
Domaini585 – 719DNA_LIGASE_A3InterPro annotationAdd BLAST135

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiKOG4437. Eukaryota.
COG1793. LUCA.
GeneTreeiENSGT00860000133792.
HOGENOMiHOG000007653.
HOVERGENiHBG005515.
KOiK10776.

Family and domain databases

Gene3Di1.10.3260.10. 1 hit.
3.30.1740.10. 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.
IPR001510. Znf_PARP.
[Graphical view]
PfamiPF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 1 hit.
PF00645. zf-PARP. 1 hit.
[Graphical view]
SMARTiSM01336. zf-PARP. 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.
PS00347. PARP_ZN_FINGER_1. 1 hit.
PS50064. PARP_ZN_FINGER_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q5U2M4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTLAFKTLFP RNLCALGRKE LCLFSEQHHW PAIRQFSQWS ETNLLCGCCL
60 70 80 90 100
LQRRKPVLSF QRGHLRPRAT HLISWSGSHV GLCTGPCEMA EQRFCVDYAK
110 120 130 140 150
RGTAGCKKCK EKIVKGVCRI GKVVPNPFSE SGGDMKEWYH IKCMFEKLER
160 170 180 190 200
ARATTKKIED LTELEGWEEL EDNEKEQISQ HIADLSSKTA ATPKKKATVQ
210 220 230 240 250
AKLTTTGQVT SPVKGASFIT STNPRKFSGF SAAKPNNSEQ DPSSPAPKTS
260 270 280 290 300
LSASKCDPKH KDCLLREFRK LCAMVAENPS YNTKTQIIHD FLQKGSTGDG
310 320 330 340 350
FRGDVYLTVK LLLPGVIKSV YNLNDKQIVK LFSRIFNCNP DDMARDLEQG
360 370 380 390 400
DVSETIRVFF EQSKSFPPAA KSLLTIQEVD AFLLHLSKLT KEDEQQQALQ
410 420 430 440 450
DIASRCTAND LKCIIRLIKH DLKMNSGAKH VLDALDPNAY EAFKASRNLQ
460 470 480 490 500
DVVERVLHNE QEVEKDPGRR RALSVQASLM TPVQPMLAEA CKSIEYAMKK
510 520 530 540 550
CPNGMFSEIK YDGERVQVHK KGDHFSYFSR SLKPVLPHKV AHFKDYIPKA
560 570 580 590 600
FPGGQSMILD SEVLLIDNNT GKPLPFGTLG VHKKAAFQDA NVCLFVFDCI
610 620 630 640 650
YFNDVSLMDR PLCERRKFLH DNMVEIRNRI MFSEMKQVTK ASDLADMINR
660 670 680 690 700
VIREGLEGLV LKDVKGTYEP GKRHWLKVKK DYLNEGAMAD TADLVVLGAF
710 720 730 740 750
YGQGSKGGMM SIFLMGCYDP DSQKWCTVTK CAGGHDDATL ARLQKELDMV
760 770 780 790 800
KISKDPSKIP SWLKINKIYY PDFIVPDPKK AAVWEITGAE FSRSEAHTAD
810 820 830 840 850
GISIRFPRCT RIRDDKDWKS ATNLPQLKEL YQLSKDKADF AVVAGDEGSS
860 870 880 890 900
TTGGSNGENE GTAGSTVPRK GPKGPPSKSS ASAKKTEQKL NDPSSRGGEK
910 920 930 940
LAVKSSPVKV GMKRKAADET PGLTKRRRAS RQRGRRAMRT GRR
Length:943
Mass (Da):105,443
Last modified:December 7, 2004 - v1
Checksum:i986AD1C3A46F677E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC095947 Genomic DNA. No translation available.
BC085959 mRNA. Translation: AAH85959.1.
RefSeqiNP_001012011.1. NM_001012011.1.
XP_008766244.1. XM_008768022.2.
XP_008766245.1. XM_008768023.1.
UniGeneiRn.230056.

Genome annotation databases

EnsembliENSRNOT00000055982; ENSRNOP00000052836; ENSRNOG00000021815.
GeneIDi303369.
KEGGirno:303369.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC095947 Genomic DNA. No translation available.
BC085959 mRNA. Translation: AAH85959.1.
RefSeqiNP_001012011.1. NM_001012011.1.
XP_008766244.1. XM_008768022.2.
XP_008766245.1. XM_008768023.1.
UniGeneiRn.230056.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000052836.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000055982; ENSRNOP00000052836; ENSRNOG00000021815.
GeneIDi303369.
KEGGirno:303369.

Organism-specific databases

CTDi3980.
RGDi1309875. Lig3.

Phylogenomic databases

eggNOGiKOG4437. Eukaryota.
COG1793. LUCA.
GeneTreeiENSGT00860000133792.
HOGENOMiHOG000007653.
HOVERGENiHBG005515.
KOiK10776.

Enzyme and pathway databases

ReactomeiR-RNO-110381. Resolution of AP sites via the single-nucleotide replacement pathway.
R-RNO-5649702. APEX1-Independent Resolution of AP Sites via the Single Nucleotide Replacement Pathway.
R-RNO-5685939. HDR through MMEJ (alt-NHEJ).
R-RNO-6782210. Gap-filling DNA repair synthesis and ligation in TC-NER.

Gene expression databases

BgeeiENSRNOG00000021815.

Family and domain databases

Gene3Di1.10.3260.10. 1 hit.
3.30.1740.10. 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.
IPR001510. Znf_PARP.
[Graphical view]
PfamiPF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 1 hit.
PF00645. zf-PARP. 1 hit.
[Graphical view]
SMARTiSM01336. zf-PARP. 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.
PS00347. PARP_ZN_FINGER_1. 1 hit.
PS50064. PARP_ZN_FINGER_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiQ5U2M4_RAT
AccessioniPrimary (citable) accession number: Q5U2M4
Entry historyi
Integrated into UniProtKB/TrEMBL: December 7, 2004
Last sequence update: December 7, 2004
Last modified: November 30, 2016
This is version 106 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Proteomics identificationCombined sources, Reference proteomeImported

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 one 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.