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Protein

DNA ligase

Gene

POPTR_0018s13870g

Organism
Populus trichocarpa (Western balsam poplar) (Populus balsamifera subsp. trichocarpa)
Status
Unreviewed-Annotation score: Annotation score: 2 out of 5-Protein inferred from homologyi

Functioni

Catalytic activityi

ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m).UniRule annotation

GO - Molecular functioni

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

Names & Taxonomyi

Protein namesi
Recommended name:
DNA ligaseUniRule annotation (EC:6.5.1.1UniRule annotation)
Gene namesi
ORF Names:POPTR_0018s13870gImported
OrganismiPopulus trichocarpa (Western balsam poplar) (Populus balsamifera subsp. trichocarpa)Imported
Taxonomic identifieri3694 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsfabidsMalpighialesSalicaceaeSaliceaePopulus
ProteomesiUP000006729 Componenti: Linkage group LGXVIII

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Interactioni

Protein-protein interaction databases

STRINGi3694.POPTR_0018s13870.1.

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG1793.
HOGENOMiHOG000083793.
InParanoidiB9IN68.
KOiK10777.
OMAiGNEEIHG.

Family and domain databases

Gene3Di1.10.3260.10. 1 hit.
2.40.50.140. 1 hit.
3.40.50.10190. 1 hit.
InterProiIPR017956. AT_hook_DNA-bd_motif.
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.
IPR029710. LIG4.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PANTHERiPTHR10459:SF7. PTHR10459:SF7. 1 hit.
PfamiPF00533. BRCT. 1 hit.
PF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 1 hit.
[Graphical view]
SMARTiSM00384. AT_hook. 2 hits.
SM00292. BRCT. 1 hit.
[Graphical view]
SUPFAMiSSF117018. SSF117018. 1 hit.
SSF50249. SSF50249. 1 hit.
SSF52113. SSF52113. 2 hits.
TIGRFAMsiTIGR00574. dnl1. 1 hit.
PROSITEiPS50172. BRCT. 2 hits.
PS00697. DNA_LIGASE_A1. 1 hit.
PS00333. DNA_LIGASE_A2. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

B9IN68-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MASSSSSSST AHTKFSILVS LFNWISKTKT SSRKRSKFRK FIDTFCSPSD
60 70 80 90 100
YFSAVRLILP NLDRERGTYG LKESVLAVSL IEALGMSRDS PDALKLINWR
110 120 130 140 150
KGGANATGAN AGNFSLVAAE VLQRRQGTVS GGLTIEELNG LLDKLASSEN
160 170 180 190 200
RGEKTAVLAA LINKTNTQEM KWIIMIILKD LKLGMSEKSV FHEFHPDAED
210 220 230 240 250
LFNVTCDLKL VCEKLRDRNQ RHKRQDIEVG KAVRPQLAMR VSDAHAAWKK
260 270 280 290 300
LHGKEVVVEC KFDGDRIQIH KNGAEVHYFS RNFLDHSEYA HGMSDIIVQN
310 320 330 340 350
VLDERCILDG EMLVWDTSLN RFAEFGSNQE IAKAARDGLD SDRQLCYVAF
360 370 380 390 400
DILYVGDTSV IHQTLKERHE LLRKVVKPVK GRLEILVPNG GLNAHRLPGE
410 420 430 440 450
PYCSLIAYNV DDIEKFFKET IENRDEGIVL KDLGSKWEPS DRSGKWLKLK
460 470 480 490 500
PEYIRAGSDL DVLIIGGYYG SGRRGGEVAQ FLLGLAERPA SNTYPRRFIS
510 520 530 540 550
FCRVGNGLSD EELDTVVSKL KPYFRKNEYP KNSPPSFYQV TNNSKERPDV
560 570 580 590 600
WIENPDKSII LSITSDIRTI SSEVFSAPYS LRFPRIDRVR YDKPWHECLD
610 620 630 640 650
VQSFVELVHS SNGTTQKGKG YGYVQDSKPT HIKSSRKGEK KSVSVVPSHL
660 670 680 690 700
IQTDISDIKG ETLIFSNMMF YFVNVPPSNS LESLHKMVAE NGGTFSMNLN
710 720 730 740 750
NSVTHCIAAE SKGIKYQAAK LHGDIIHYSW VLDCCLQKKL LPLQPKSFLF
760 770 780 790 800
LSDGSKKKLH EEIDEFSDSY YWDLDLSDIK QLLSNINASE DAKAIDDLKQ
810 820 830 840 850
KYCPEEKWSL FHGCCVYFHI SRESLTPDWE SLLGLAFRRL KLEIFMGGGK
860 870 880 890 900
VSNNIAHATH LVVLIVPASD VDFGSLVKSF TTAEKHFLLN KRLYVIGSQW
910 920 930 940 950
LEDSLERGQK LLEDTYNLKP SGLEESNCKE VLPSVTDSEA KEKGSKAALK
960 970 980 990 1000
DSNKLGSLEK ETTRKRGRPA GESTKKGKIG AGQARRTRAR IVNKPAKISV
1010 1020 1030 1040 1050
EKSDESCSHD DKNEENDMSD GNEEIHGGKP AGRPAGGSTK KGKIGAGQAL
1060 1070 1080 1090 1100
RTRTRIANKP AKILEEKSEE SCLHDDEIEE NEMSEGNEEI HGPVSKYNLD
1110 1120 1130 1140 1150
IQQTTTVEDS ESSRRDKAKE ETAEENRHEE WLDKAPDVEM SERYYDQVTE
1160 1170 1180 1190 1200
KPEKLEVMVD PVHAILMDMI PSLGMKKGET TNPTIGNEKQ AEGPYAQPSL
1210 1220 1230 1240
SMKKVENTTP TLDTEKPSEN PSLLPVKKKV SYKDLAAKLL MN
Length:1,242
Mass (Da):139,369
Last modified:December 11, 2013 - v2
Checksum:iC90CEB0E3DE21298
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CM000354 Genomic DNA. Translation: EEF03827.2.
RefSeqiXP_002325262.2. XM_002325226.2.

Genome annotation databases

EnsemblPlantsiPOPTR_0018s13870.1; POPTR_0018s13870.1; POPTR_0018s13870.
GeneIDi7484065.
KEGGipop:POPTR_0018s13870g.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CM000354 Genomic DNA. Translation: EEF03827.2.
RefSeqiXP_002325262.2. XM_002325226.2.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi3694.POPTR_0018s13870.1.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiPOPTR_0018s13870.1; POPTR_0018s13870.1; POPTR_0018s13870.
GeneIDi7484065.
KEGGipop:POPTR_0018s13870g.

Phylogenomic databases

eggNOGiCOG1793.
HOGENOMiHOG000083793.
InParanoidiB9IN68.
KOiK10777.
OMAiGNEEIHG.

Family and domain databases

Gene3Di1.10.3260.10. 1 hit.
2.40.50.140. 1 hit.
3.40.50.10190. 1 hit.
InterProiIPR017956. AT_hook_DNA-bd_motif.
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.
IPR029710. LIG4.
IPR012340. NA-bd_OB-fold.
[Graphical view]
PANTHERiPTHR10459:SF7. PTHR10459:SF7. 1 hit.
PfamiPF00533. BRCT. 1 hit.
PF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF04675. DNA_ligase_A_N. 1 hit.
[Graphical view]
SMARTiSM00384. AT_hook. 2 hits.
SM00292. BRCT. 1 hit.
[Graphical view]
SUPFAMiSSF117018. SSF117018. 1 hit.
SSF50249. SSF50249. 1 hit.
SSF52113. SSF52113. 2 hits.
TIGRFAMsiTIGR00574. dnl1. 1 hit.
PROSITEiPS50172. BRCT. 2 hits.
PS00697. DNA_LIGASE_A1. 1 hit.
PS00333. DNA_LIGASE_A2. 1 hit.
PS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "The genome of black cottonwood, Populus trichocarpa (Torr. & Gray)."
    Tuskan G.A., Difazio S., Jansson S., Bohlmann J., Grigoriev I., Hellsten U., Putnam N., Ralph S., Rombauts S., Salamov A., Schein J., Sterck L., Aerts A., Bhalerao R.R., Bhalerao R.P., Blaudez D., Boerjan W., Brun A.
    , Brunner A., Busov V., Campbell M., Carlson J., Chalot M., Chapman J., Chen G.-L., Cooper D., Coutinho P.M., Couturier J., Covert S., Cronk Q., Cunningham R., Davis J., Degroeve S., Dejardin A., dePamphilis C.W., Detter J., Dirks B., Dubchak I., Duplessis S., Ehlting J., Ellis B., Gendler K., Goodstein D., Gribskov M., Grimwood J., Groover A., Gunter L., Hamberger B., Heinze B., Helariutta Y., Henrissat B., Holligan D., Holt R., Huang W., Islam-Faridi N., Jones S., Jones-Rhoades M., Jorgensen R., Joshi C., Kangasjaervi J., Karlsson J., Kelleher C., Kirkpatrick R., Kirst M., Kohler A., Kalluri U., Larimer F., Leebens-Mack J., Leple J.-C., Locascio P., Lou Y., Lucas S., Martin F., Montanini B., Napoli C., Nelson D.R., Nelson C., Nieminen K., Nilsson O., Pereda V., Peter G., Philippe R., Pilate G., Poliakov A., Razumovskaya J., Richardson P., Rinaldi C., Ritland K., Rouze P., Ryaboy D., Schmutz J., Schrader J., Segerman B., Shin H., Siddiqui A., Sterky F., Terry A., Tsai C.-J., Uberbacher E., Unneberg P., Vahala J., Wall K., Wessler S., Yang G., Yin T., Douglas C., Marra M., Sandberg G., Van de Peer Y., Rokhsar D.S.
    Science 313:1596-1604(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. NisquallyImported.

Entry informationi

Entry nameiB9IN68_POPTR
AccessioniPrimary (citable) accession number: B9IN68
Entry historyi
Integrated into UniProtKB/TrEMBL: March 24, 2009
Last sequence update: December 11, 2013
Last modified: July 22, 2015
This is version 50 of the entry and version 2 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.