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Protein
Submitted name:

DNA ligase D

Gene

ligD

Organism
Agrobacterium vitis (strain S4 / ATCC BAA-846) (Rhizobium vitis (strain S4))
Status
Unreviewed-Annotation score: Annotation score: 1 out of 5-Protein predictedi

Functioni

GO - Molecular functioni

  1. ATP binding Source: InterPro
  2. DNA ligase (ATP) activity Source: InterPro

GO - Biological processi

  1. DNA recombination Source: InterPro
  2. DNA repair Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

LigaseImported

Enzyme and pathway databases

BioCyciAVIT311402:GH2Y-4949-MONOMER.

Names & Taxonomyi

Protein namesi
Submitted name:
DNA ligase DImported
Gene namesi
Name:ligDImported
Ordered Locus Names:Avi_8017Imported
Encoded oniPlasmid pTiS4Imported
OrganismiAgrobacterium vitis (strain S4 / ATCC BAA-846) (Rhizobium vitis (strain S4))Imported
Taxonomic identifieri311402 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeRhizobium/Agrobacterium groupAgrobacterium
ProteomesiUP000001596 Componenti: Plasmid pTiS4

PTM / Processingi

Proteomic databases

PRIDEiB9K4A7.

Interactioni

Protein-protein interaction databases

STRINGi311402.Avi_8017.

Family & Domainsi

Phylogenomic databases

eggNOGiCOG3285.
HOGENOMiHOG000222509.
KOiK01971.
OMAiMISSPDK.
OrthoDBiEOG661H49.

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
InterProiIPR012309. DNA_ligase_ATP-dep_C.
IPR012310. DNA_ligase_ATP-dep_cent.
IPR014146. LigD_ligase_dom.
IPR014144. LigD_PE_domain.
IPR014145. LigD_pol_dom.
IPR012340. NA-bd_OB-fold.
IPR014143. NHEJ_ligase_prk.
[Graphical view]
PfamiPF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF13298. LigD_N. 1 hit.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
TIGRFAMsiTIGR02777. LigD_PE_dom. 1 hit.
TIGR02778. ligD_pol. 1 hit.
TIGR02779. NHEJ_ligase_lig. 1 hit.
TIGR02776. NHEJ_ligase_prk. 1 hit.
PROSITEiPS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

B9K4A7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPDNLSKYRE KRDFKKTAEP SGEVGVKSSN RRRFVIQKHD ATRLHYDLRI
60 70 80 90 100
EMDGVFKSWA VTKGPSLDPH DKRLAVEVED HPLDYGDFEG TIPKGQYGGG
110 120 130 140 150
TVMLWDRGYW EPEGNKTAEQ ALAKGDFKFT LEGERLHGSF VLVRMRGREG
160 170 180 190 200
EKRTNWLLIK HHDDHAVEEN GAAILEENDT SVASGRTMEA IASGKGRKPK
210 220 230 240 250
PFMTQGSVVE ADAVWDSTEG LAADERKAGT KTKAKPTKKA AAAAKQPNTG
260 270 280 290 300
MPEFVPPQLC ETFSRPPSAE GWIHEVKFDG YRIQMRVVDG NVTLKTRKGL
310 320 330 340 350
DWTAKWPAIA KAASSLPDCI IDGEICALDN HGAPDFAALQ AALSEEKTDD
360 370 380 390 400
LVFFGFDLLF EGEEDLREAP LTERKERLSA MLSDAGDDPR LRFVEHFETG
410 420 430 440 450
GDAVLKSACR LSLEGIVSKK GDAPYQSGRS DTWTKSKCRA GHEVVIGAYA
460 470 480 490 500
TTNGAFRSLL VGVYRGDHFV YVGRVGTGYG AKVVDQILPK LQALEASKSP
510 520 530 540 550
FTGIGAPKKA AEIVWLKPEL VAEIEFAGWT ADGQVRQAAF KGLREDKPAK
560 570 580 590 600
EVEAEKPAEP AEVDTPDPET ARKPAPTPTT SSRLRKGAKV DVMGVLVSSP
610 620 630 640 650
DKELWPDALD GEPVTKVDLA HYYEAVGPWL IDHIKGRPCS IIRTPDGIGG
660 670 680 690 700
EQFFQRHAMQ GTSNLIEQVK VSGDKQPYLQ IGRVEGLAAI AQIGGAELHP
710 720 730 740 750
WNCEPYQPEV PGRLVFDLDP GPDVDFATVV EGAREIRDRL EELGLVSFCK
760 770 780 790 800
TTGGKGLHVV TPLAVPKGKK LSWDEGKAFA HDVCLQMARD NPELYLTKMS
810 820 830 840 850
KAQREGRIFL DYLRNDRTST AVAPLSPRAR PGATVSMPLN WAQVKKGLDP
860 870 880 890
KRFTIRTVPG LLKDNTAWQD YCDGQRPLEQ AIKRLEKLMR RAA
Length:893
Mass (Da):98,374
Last modified:March 24, 2009 - v1
Checksum:i25FBFD8BB5F51957
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000637 Genomic DNA. Translation: ACM39557.1.
RefSeqiYP_002539996.1. NC_011982.1.

Genome annotation databases

EnsemblBacteriaiACM39557; ACM39557; Avi_8017.
KEGGiavi:Avi_8017.
PATRICi20821776. VBIAgrVit37146_0593.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000637 Genomic DNA. Translation: ACM39557.1.
RefSeqiYP_002539996.1. NC_011982.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi311402.Avi_8017.

Proteomic databases

PRIDEiB9K4A7.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACM39557; ACM39557; Avi_8017.
KEGGiavi:Avi_8017.
PATRICi20821776. VBIAgrVit37146_0593.

Phylogenomic databases

eggNOGiCOG3285.
HOGENOMiHOG000222509.
KOiK01971.
OMAiMISSPDK.
OrthoDBiEOG661H49.

Enzyme and pathway databases

BioCyciAVIT311402:GH2Y-4949-MONOMER.

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
InterProiIPR012309. DNA_ligase_ATP-dep_C.
IPR012310. DNA_ligase_ATP-dep_cent.
IPR014146. LigD_ligase_dom.
IPR014144. LigD_PE_domain.
IPR014145. LigD_pol_dom.
IPR012340. NA-bd_OB-fold.
IPR014143. NHEJ_ligase_prk.
[Graphical view]
PfamiPF04679. DNA_ligase_A_C. 1 hit.
PF01068. DNA_ligase_A_M. 1 hit.
PF13298. LigD_N. 1 hit.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
TIGRFAMsiTIGR02777. LigD_PE_dom. 1 hit.
TIGR02778. ligD_pol. 1 hit.
TIGR02779. NHEJ_ligase_lig. 1 hit.
TIGR02776. NHEJ_ligase_prk. 1 hit.
PROSITEiPS50160. DNA_LIGASE_A3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Entry informationi

Entry nameiB9K4A7_AGRVS
AccessioniPrimary (citable) accession number: B9K4A7
Entry historyi
Integrated into UniProtKB/TrEMBL: March 24, 2009
Last sequence update: March 24, 2009
Last modified: April 29, 2015
This is version 46 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, PlasmidImported, 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.