D2H2R3 (D2H2R3_AILME) Unreviewed, UniProtKB/TrEMBL

Names and origin

Protein names

Recommended name:
DNA ligase RuleBase RU000617
EC=6.5.1.1 RuleBase RU000617

Gene names

ORF Names:

PANDA_003934 EMBL EFB27082.1

Organism

Ailuropoda melanoleuca (Giant panda)

Taxonomic identifier

9646 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Laurasiatheria › Carnivora › Caniformia › Ursidae › Ailuropoda

Protein attributes

Sequence length	911 AA.
Sequence status	Fragment.
Protein existence	Inferred from homology

General annotation (Comments)

Catalytic activity	ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m). RuleBase RU000617
Sequence similarities	Belongs to the ATP-dependent DNA ligase family. RuleBase RU004196

Ontologies

Keywords
Biological process	DNA damage DNA recombination RuleBase RU000617 DNA repair RuleBase RU000617 DNA replication RuleBase RU000617
Ligand	ATP-binding RuleBase RU000617 Nucleotide-binding
Molecular function	Ligase RuleBase RU000617
Gene Ontology (GO)
Biological_process	DNA ligation involved in DNA recombination Inferred from electronic annotation. Source: Compara DNA ligation involved in DNA repair Inferred from electronic annotation. Source: Compara DNA replication Inferred from electronic annotation. Source: UniProtKB-KW T cell differentiation in thymus Inferred from electronic annotation. Source: Compara T cell receptor V(D)J recombination Inferred from electronic annotation. Source: Compara cell proliferation Inferred from electronic annotation. Source: Compara central nervous system development Inferred from electronic annotation. Source: Compara chromosome organization Inferred from electronic annotation. Source: Compara double-strand break repair via nonhomologous end joining Inferred from electronic annotation. Source: Compara immunoglobulin V(D)J recombination Inferred from electronic annotation. Source: Compara in utero embryonic development Inferred from electronic annotation. Source: Compara isotype switching Inferred from electronic annotation. Source: Compara negative regulation of neuron apoptotic process Inferred from electronic annotation. Source: Compara neuron apoptotic process Inferred from electronic annotation. Source: Compara nucleotide-excision repair, DNA gap filling Inferred from electronic annotation. Source: Compara positive regulation of fibroblast proliferation Inferred from electronic annotation. Source: Compara positive regulation of neurogenesis Inferred from electronic annotation. Source: Compara pro-B cell differentiation Inferred from electronic annotation. Source: Compara response to X-ray Inferred from electronic annotation. Source: Compara response to gamma radiation Inferred from electronic annotation. Source: Compara single strand break repair Inferred from electronic annotation. Source: Compara somatic stem cell maintenance Inferred from electronic annotation. Source: Compara
Cellular_component	DNA ligase IV complex Inferred from electronic annotation. Source: Compara DNA-dependent protein kinase-DNA ligase 4 complex Inferred from electronic annotation. Source: Compara condensed chromosome Inferred from electronic annotation. Source: Compara cytoplasm Inferred from electronic annotation. Source: Compara focal adhesion Inferred from electronic annotation. Source: Compara plasma membrane Inferred from electronic annotation. Source: Compara
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW DNA binding Inferred from electronic annotation. Source: Compara DNA ligase (ATP) activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Experimental info
	Non-terminal residue	911	1	EMBL EFB27082.1

Sequences

	Sequence		Length	Mass (Da)
	D2H2R3 [UniParc]. Last modified February 9, 2010. Version 1. Checksum: 103EDFCADBE593E1	FASTA	911	104,150
	10 20 30 40 50 60 MAASHTSPTV ASRVPFADLC STLERIQRSR ERAAKIRHFR EFLDSWRRFH DALHKNQRDV 70 80 90 100 110 120 SDSFYPAMRL ILPQLERERM AYGIKETMLA KLYIELLNLP RGGKDALKLL NYRTPTGTRA 130 140 150 160 170 180 DAGDFATIAY FVLKPRCLQK GSLTIQQVND ILDSIASNNS ARRKDLIKKS LLQLISQSSA 190 200 210 220 230 240 LEQKWLIRMI VKDLKLGFSE QSVFSVFHND AAELHNVTTD LEKVCRQLHD PSIGLSDISI 250 260 270 280 290 300 TLFSAFKPML AAIADIERIE KDMKHQSFYI ETKLDGERMQ MHRQGDVYQY FSRNGYNYTD 310 320 330 340 350 360 QFGDSPREGS LTPFIHSAFK TDVQICILDG EMMAFNPNTQ TFMQKGNKFD IKRMVEDSDL 370 380 390 400 410 420 QTCYCVFDVL MVNNKKLGRE TLKKRHEILT SVFTPIPGRI EIVQKTQAHT QKEVIDALNE 430 440 450 460 470 480 AIDKREEGIM IKHPLSIYKP DKRGEGWLKI KPEYVDGLMD ELDILIVGGY WGKGSRGGMM 490 500 510 520 530 540 SHFLCAVAEK PPPGEKPSVF HTLCRVGSGY TMKELYDLGL KLAKHWKPFH KKAPPSSILC 550 560 570 580 590 600 GTEKPEVYIE PCHSVIVQVK ATEIVSSDMY KAGCTLRFPR IERIREDKEW HECTTVDDLE 610 620 630 640 650 660 QLRGKASGKL ASKHLYVGDD DEPQEKKRKA APKVKKVIGI IEHLKAPNLS NVNKVCNIFE 670 680 690 700 710 720 DVEFCVMSGT GSHPKPDLEN RIAEFGGYIV QNPGPDTYCV IAGSENIRVK NIISSNKHDV 730 740 750 760 770 780 VKPEWLLECF KTKSCVPWQP RFMIHMCPST KEHFAREYDH YGDSYFIDTD LNQLKEVFSG 790 800 810 820 830 840 IKNSGEQTPG EMASVIAHLE FRYSWDRCPL SMFRQHIIYV DVYAVINDLS TKIEGTRLAV 850 860 870 880 890 900 MGLELRFHGA KVVSRLAQGV SHVIVGEDRS RVADLKAFRR TLKRKFKILQ QDWVTDSIDK 910 CELQEENRYL V

References

[1]

"The sequence and de novo assembly of the giant panda genome." Li R., Fan W., Tian G., Zhu H., He L., Cai J., Huang Q., Cai Q., Li B., Bai Y., Zhang Z., Zhang Y., Wang W., Li J., Wei F., Li H., Jian M., Li J. , Zhang Z., Nielsen R., Li D., Gu W., Yang Z., Xuan Z., Ryder O.A., Leung F.C., Zhou Y., Cao J., Sun X., Fu Y., Fang X., Guo X., Wang B., Hou R., Shen F., Mu B., Ni P., Lin R., Qian W., Wang G., Yu C., Nie W., Wang J., Wu Z., Liang H., Min J., Wu Q., Cheng S., Ruan J., Wang M., Shi Z., Wen M., Liu B., Ren X., Zheng H., Dong D., Cook K., Shan G., Zhang H., Kosiol C., Xie X., Lu Z., Zheng H., Li Y., Steiner C.C., Lam T.T., Lin S., Zhang Q., Li G., Tian J., Gong T., Liu H., Zhang D., Fang L., Ye C., Zhang J., Hu W., Xu A., Ren Y., Zhang G., Bruford M.W., Li Q., Ma L., Guo Y., An N., Hu Y., Zheng Y., Shi Y., Li Z., Liu Q., Chen Y., Zhao J., Qu N., Zhao S., Tian F., Wang X., Wang H., Xu L., Liu X., Vinar T., Wang Y., Lam T.W., Yiu S.M., Liu S., Zhang H., Li D., Huang Y., Wang X., Yang G., Jiang Z., Wang J., Qin N., Li L., Li J., Bolund L., Kristiansen K., Wong G.K., Olson M., Zhang X., Li S., Yang H., Wang J., Wang J. Nature 463:311-317(2010) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases
EMBL GenBank DDBJ	GL192446 Genomic DNA. Translation: EFB27082.1.
RefSeq	XP_002915906.1. XM_002915860.1.
3D structure databases
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	100476294.
KEGG	aml:100476294.
Organism-specific databases
CTD	3981.
Phylogenomic databases
HOGENOM	HOG000007831.
KO	K10777.
Family and domain databases
Gene3D	1.10.3260.10. 1 hit. 2.40.50.140. 1 hit.
InterPro	IPR001357. BRCT_dom. 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. IPR021536. DNA_ligase_IV. IPR012340. NA-bd_OB-fold. [Graphical view]
Pfam	PF00533. BRCT. 2 hits. PF04679. DNA_ligase_A_C. 1 hit. PF01068. DNA_ligase_A_M. 1 hit. PF04675. DNA_ligase_A_N. 1 hit. PF11411. DNA_ligase_IV. 1 hit. [Graphical view]
SMART	SM00292. BRCT. 2 hits. [Graphical view]
SUPFAM	SSF52113. BRCT. 2 hits. SSF50249. Nucleic_acid_OB. 1 hit. SSF117018. SSF117018. 1 hit.
TIGRFAMs	TIGR00574. dnl1. 1 hit.
PROSITE	PS50172. BRCT. 2 hits. PS00697. DNA_LIGASE_A1. 1 hit. PS00333. DNA_LIGASE_A2. 1 hit. PS50160. DNA_LIGASE_A3. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

D2H2R3_AILME

Accession

Primary (citable) accession number: D2H2R3

Entry history

Integrated into UniProtKB/TrEMBL:	February 9, 2010
Last sequence update:	February 9, 2010
Last modified:	March 6, 2013
This is version 24 of the entry and version 1 of the sequence. [Complete history]

Entry status

Unreviewed (UniProtKB/TrEMBL)