RAT:D4A0U6

Species (Taxon ID)	Rattus norvegicus (Rat). (10116)
Gene Name(s)	No Information Provided.
Protein Name(s)	DNA ligase (ECO:0000256 with RuleBase:RU000617)
External Links
UniProt	D4A0U6
EMBL	AABR07026596 CH473970 CH473970
RefSeq	NP_001099565.1 XP_006253539.1
UniGene	Rn.219326
STRING	10116.ENSRNOP00000019615
Ensembl	ENSRNOT00000019615
GeneID	290907
KEGG	rno:290907
UCSC	RGD:1304639
CTD	3981
RGD	1304639
eggNOG	COG1793 KOG0966
GeneTree	ENSGT00820000127116
KO	K10777
OMA	IGEDHSR
OrthoDB	EOG7BKCT2
TreeFam	TF312980
Reactome	R-RNO-5693571
NextBio	631821
Proteomes	UP000002494
GO	GO:0000793 GO:0005737 GO:0032807 GO:0005958 GO:0005925 GO:0005654 GO:0005634 GO:0005886 GO:0005524 GO:0003677 GO:0003910 GO:0008283 GO:0071285 GO:0007417 GO:0051276 GO:0071897 GO:0006266 GO:0051102 GO:0051103 GO:0006260 GO:0097680 GO:0006303 GO:0033152 GO:0001701 GO:0045190 GO:0043524 GO:0051402 GO:0006297 GO:0048146 GO:0050769 GO:0002328 GO:0010332 GO:0010165 GO:0000012 GO:0035019 GO:0033077 GO:0033153
Gene3D	1.10.3260.10 2.40.50.140 3.40.50.10190
InterPro	IPR001357 IPR000977 IPR012309 IPR012310 IPR016059 IPR012308 IPR021536 IPR029710 IPR012340
PANTHER	PTHR10459:SF7
Pfam	PF00533 PF04679 PF01068 PF04675 PF11411
SMART	SM00292
SUPFAM	SSF117018 SSF50249 SSF52113
TIGRFAMs	TIGR00574
PROSITE	PS50172 PS00697 PS00333 PS50160

Annotations

Qualifier	GO ID	GO term name	Reference	ECO ID	ECO term name	with/from	Aspect	Notes	Status
involved_in	GO:0071285	cellular response to lithium ion	PMID:19285016^[1]	ECO:0000270	expression pattern evidence used in manual assertion		P	Seeded From UniProt	complete
involved_in	GO:0006266	DNA ligation	PMID:9600082^[2]	ECO:0000314	direct assay evidence used in manual assertion		P	Seeded From UniProt	complete
part_of	GO:0005634	nucleus	PMID:9600082^[2]	ECO:0000314	direct assay evidence used in manual assertion		C	Seeded From UniProt	complete
enables	GO:0005524	ATP binding	PMID:9600082^[2]	ECO:0000314	direct assay evidence used in manual assertion		F	Seeded From UniProt	complete
enables	GO:0003910	DNA ligase (ATP) activity	PMID:9600082^[2]	ECO:0000314	direct assay evidence used in manual assertion		F	Seeded From UniProt	complete
enables	GO:0003677	DNA binding	PMID:9600082^[2]	ECO:0000314	direct assay evidence used in manual assertion		F	Seeded From UniProt	complete
involved_in	GO:0033152	immunoglobulin V(D)J recombination	PMID:21873635^[3]	ECO:0000318	biological aspect of ancestor evidence used in manual assertion	MGI:MGI:1335098 PANTHER:PTN000048705	P	Seeded From UniProt	complete
part_of	GO:0032807	DNA ligase IV complex	PMID:21873635^[3]	ECO:0000318	biological aspect of ancestor evidence used in manual assertion	PANTHER:PTN000048698 PomBase:SPCC1183.05c SGD:S000005531 UniProtKB:P49917	C	Seeded From UniProt	complete
involved_in	GO:0006303	double-strand break repair via nonhomologous end joining	PMID:21873635^[3]	ECO:0000318	biological aspect of ancestor evidence used in manual assertion	FB:FBgn0030506 MGI:MGI:1335098 PANTHER:PTN000048698 SGD:S000005531 TAIR:locus:2175544 UniProtKB:P49917	P	Seeded From UniProt	complete
involved_in	GO:0006297	nucleotide-excision repair, DNA gap filling	PMID:21873635^[3]	ECO:0000318	biological aspect of ancestor evidence used in manual assertion	PANTHER:PTN000048698 UniProtKB:P49917	P	Seeded From UniProt	complete
part_of	GO:0005958	DNA-dependent protein kinase-DNA ligase 4 complex	PMID:21873635^[3]	ECO:0000318	biological aspect of ancestor evidence used in manual assertion	MGI:MGI:1335098 PANTHER:PTN000825456 UniProtKB:P49917	C	Seeded From UniProt	complete
involved_in	GO:2001252	positive regulation of chromosome organization	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	P	Seeded From UniProt	complete
involved_in	GO:0097680	double-strand break repair via classical nonhomologous end joining	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	P	Seeded From UniProt	complete
involved_in	GO:0071479	cellular response to ionizing radiation	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	P	Seeded From UniProt	complete
part_of	GO:0070419	nonhomologous end joining complex	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	C	Seeded From UniProt	complete
involved_in	GO:0051103	DNA ligation involved in DNA repair	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	P	Seeded From UniProt	complete
part_of	GO:0036464	cytoplasmic ribonucleoprotein granule	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	C	Seeded From UniProt	complete
involved_in	GO:0033151	V(D)J recombination	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	P	Seeded From UniProt	complete
part_of	GO:0032807	DNA ligase IV complex	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	C	Seeded From UniProt	complete
enables	GO:0016874	ligase activity	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	F	Seeded From UniProt	complete
involved_in	GO:0010165	response to X-ray	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	P	Seeded From UniProt	complete
enables	GO:0008022	protein C-terminus binding	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	F	Seeded From UniProt	complete
involved_in	GO:0006303	double-strand break repair via nonhomologous end joining	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	P	Seeded From UniProt	complete
involved_in	GO:0006302	double-strand break repair	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	P	Seeded From UniProt	complete
involved_in	GO:0006297	nucleotide-excision repair, DNA gap filling	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	P	Seeded From UniProt	complete
involved_in	GO:0006266	DNA ligation	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	P	Seeded From UniProt	complete
part_of	GO:0005958	DNA-dependent protein kinase-DNA ligase 4 complex	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	C	Seeded From UniProt	complete
part_of	GO:0005654	nucleoplasm	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	C	Seeded From UniProt	complete
part_of	GO:0005634	nucleus	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	C	Seeded From UniProt	complete
enables	GO:0003910	DNA ligase (ATP) activity	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	F	Seeded From UniProt	complete
enables	GO:0003909	DNA ligase activity	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	F	Seeded From UniProt	complete
enables	GO:0003677	DNA binding	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	F	Seeded From UniProt	complete
part_of	GO:0000793	condensed chromosome	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	C	Seeded From UniProt	complete
involved_in	GO:0000012	single strand break repair	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:P49917 ensembl:ENSP00000484288	P	Seeded From UniProt	complete
involved_in	GO:0051402	neuron apoptotic process	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0051276	chromosome organization	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0051103	DNA ligation involved in DNA repair	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0051102	DNA ligation involved in DNA recombination	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0050769	positive regulation of neurogenesis	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0048146	positive regulation of fibroblast proliferation	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0045190	isotype switching	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0043524	negative regulation of neuron apoptotic process	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0035019	somatic stem cell population maintenance	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0033153	T cell receptor V(D)J recombination	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0033152	immunoglobulin V(D)J recombination	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0033151	V(D)J recombination	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0033077	T cell differentiation in thymus	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0010332	response to gamma radiation	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0010212	response to ionizing radiation	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0008283	cell population proliferation	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0007417	central nervous system development	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0006303	double-strand break repair via nonhomologous end joining	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0006302	double-strand break repair	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0006281	DNA repair	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0006266	DNA ligation	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
part_of	GO:0005958	DNA-dependent protein kinase-DNA ligase 4 complex	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	C	Seeded From UniProt	complete
enables	GO:0005524	ATP binding	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	F	Seeded From UniProt	complete
enables	GO:0003910	DNA ligase (ATP) activity	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	F	Seeded From UniProt	complete
involved_in	GO:0002328	pro-B cell differentiation	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
involved_in	GO:0001701	in utero embryonic development	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:Q8BTF7 ensembl:ENSMUSP00000093130	P	Seeded From UniProt	complete
part_of	GO:0036464	cytoplasmic ribonucleoprotein granule	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:A0A024RE06 ensembl:ENSP00000484288	C	Seeded From UniProt	complete
part_of	GO:0005654	nucleoplasm	GO_REF:0000107	ECO:0000265	sequence orthology evidence used in automatic assertion	UniProtKB:A0A024RE06 ensembl:ENSP00000484288	C	Seeded From UniProt	complete
enables	GO:0003677	DNA binding	GO_REF:0000002	ECO:0000256	match to sequence model evidence used in automatic assertion	InterPro:IPR012308 InterPro:IPR029710 InterPro:IPR036599	F	Seeded From UniProt	complete
enables	GO:0003909	DNA ligase activity	GO_REF:0000002	ECO:0000256	match to sequence model evidence used in automatic assertion	InterPro:IPR016059	F	Seeded From UniProt	complete
enables	GO:0003910	DNA ligase (ATP) activity	GO_REF:0000002	ECO:0000256	match to sequence model evidence used in automatic assertion	InterPro:IPR000977 InterPro:IPR012308 InterPro:IPR012309 InterPro:IPR012310 InterPro:IPR021536 InterPro:IPR029710 InterPro:IPR036599	F	Seeded From UniProt	complete
enables	GO:0005524	ATP binding	GO_REF:0000002	ECO:0000256	match to sequence model evidence used in automatic assertion	InterPro:IPR000977 InterPro:IPR012310 InterPro:IPR029710	F	Seeded From UniProt	complete
involved_in	GO:0006281	DNA repair	GO_REF:0000002	ECO:0000256	match to sequence model evidence used in automatic assertion	InterPro:IPR000977 InterPro:IPR012308 InterPro:IPR012309 InterPro:IPR012310 InterPro:IPR029710 InterPro:IPR036599	P	Seeded From UniProt	complete
involved_in	GO:0006310	DNA recombination	GO_REF:0000002	ECO:0000256	match to sequence model evidence used in automatic assertion	InterPro:IPR000977 InterPro:IPR012308 InterPro:IPR012309 InterPro:IPR012310 InterPro:IPR036599	P	Seeded From UniProt	complete
involved_in	GO:0051103	DNA ligation involved in DNA repair	GO_REF:0000002	ECO:0000256	match to sequence model evidence used in automatic assertion	InterPro:IPR016059 InterPro:IPR029710	P	Seeded From UniProt	complete
involved_in	GO:0071897	DNA biosynthetic process	GO_REF:0000002	ECO:0000256	match to sequence model evidence used in automatic assertion	InterPro:IPR000977	P	Seeded From UniProt	complete
enables	GO:0003910	DNA ligase (ATP) activity	GO_REF:0000003	ECO:0000501	evidence used in automatic assertion	EC:6.5.1.1	F	Seeded From UniProt	complete
involved_in	GO:0006260	DNA replication	GO_REF:0000038	ECO:0000323	imported automatically asserted information used in automatic assertion	UniProtKB-KW:KW-0235	P	Seeded From UniProt	complete
enables	GO:0005524	ATP binding	GO_REF:0000038	ECO:0000323	imported automatically asserted information used in automatic assertion	UniProtKB-KW:KW-0067	F	Seeded From UniProt	complete
enables	GO:0016874	ligase activity	GO_REF:0000038	ECO:0000323	imported automatically asserted information used in automatic assertion	UniProtKB-KW:KW-0436	F	Seeded From UniProt	complete
involved_in	GO:0006281	DNA repair	GO_REF:0000038	ECO:0000323	imported automatically asserted information used in automatic assertion	UniProtKB-KW:KW-0234	P	Seeded From UniProt	complete
involved_in	GO:0006974	cellular response to DNA damage stimulus	GO_REF:0000038	ECO:0000323	imported automatically asserted information used in automatic assertion	UniProtKB-KW:KW-0227	P	Seeded From UniProt	complete
involved_in	GO:0006310	DNA recombination	GO_REF:0000038	ECO:0000323	imported automatically asserted information used in automatic assertion	UniProtKB-KW:KW-0233	P	Seeded From UniProt	complete
enables	GO:0000166	nucleotide binding	GO_REF:0000038	ECO:0000323	imported automatically asserted information used in automatic assertion	UniProtKB-KW:KW-0547	F	Seeded From UniProt	complete
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Notes

References

See Help:References for how to manage references in GONUTS.

↑ Zhuang, J et al. (2009) Lithium chloride protects retinal neurocytes from nutrient deprivation by promoting DNA non-homologous end-joining. Biochem. Biophys. Res. Commun. 380 650-4 PubMed GONUTS page
↑ ^2.0 ^2.1 ^2.2 ^2.3 ^2.4 Nagaki, S et al. (1998) Non-histone chromosomal proteins HMG1 and 2 enhance ligation reaction of DNA double-strand breaks. Biochem. Biophys. Res. Commun. 246 137-41 PubMed GONUTS page
↑ ^3.0 ^3.1 ^3.2 ^3.3 ^3.4 Gaudet, P et al. (2011) Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Brief. Bioinformatics 12 449-62 PubMed GONUTS page

[PMID:19285016-1] Zhuang, J et al. (2009) Lithium chloride protects retinal neurocytes from nutrient deprivation by promoting DNA non-homologous end-joining. Biochem. Biophys. Res. Commun. 380 650-4 PubMed GONUTS page

[PMID:9600082-2] 2.0 ^2.1 ^2.2 ^2.3 ^2.4 Nagaki, S et al. (1998) Non-histone chromosomal proteins HMG1 and 2 enhance ligation reaction of DNA double-strand breaks. Biochem. Biophys. Res. Commun. 246 137-41 PubMed GONUTS page

[PMID:21873635-3] 3.0 ^3.1 ^3.2 ^3.3 ^3.4 Gaudet, P et al. (2011) Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Brief. Bioinformatics 12 449-62 PubMed GONUTS page

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RAT:D4A0U6

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