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Protein
Submitted name:

DNA ligase D

Gene

Varpa_0532

Organism
Variovorax paradoxus (strain EPS)
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

BioCyciVPAR595537:GHGJ-538-MONOMER.

Names & Taxonomyi

Protein namesi
Submitted name:
DNA ligase DImported
Gene namesi
Ordered Locus Names:Varpa_0532Imported
OrganismiVariovorax paradoxus (strain EPS)Imported
Taxonomic identifieri595537 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesComamonadaceaeVariovorax
ProteomesiUP000008917 Componenti: Chromosome

Family & Domainsi

Phylogenomic databases

HOGENOMiHOG000222509.
KOiK01971.
OMAiHPLDYAD.

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
InterProiIPR012309. DNA_ligase_ATP-dep_C.
IPR012310. DNA_ligase_ATP-dep_cent.
IPR014146. DNA_pol_LigD_ligase_dom.
IPR014144. LigD_PE_domain.
IPR014145. LigD_pol.
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.

E6V5E7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGTTRTASTA RKALSRYHGK RDFSRTPEPK EGGRAGQGVL SFVIQKHHAS
60 70 80 90 100
RLHYDFRLEL DGTLKSWAVP KGPCLDPTVK RMAVHVEDHP ISYADFEGTI
110 120 130 140 150
PPKQYGAGTV IVWDRGDWLP EGGSEADARK ALAAGKLKFE LRGEKLKGHW
160 170 180 190 200
TLVRMRGKGD EKQEPWLLIK ERDDAARDLA DYDVLEEQPA SVLTGRGLDE
210 220 230 240 250
VDSPPKKAAP AKKAAAKKPE KKAAKKEVKK EVKKKAALPA TLQPQLAVLA
260 270 280 290 300
ASPPSSPDDW LYELKFDGYR LLARIDKGKV RCFTRNGHDW TDKLPVIAKA
310 320 330 340 350
LAKLPTDSAW LDGEITVEGG NGAPDFQALQ NAFDRGATSS IVYWLFDAPF
360 370 380 390 400
LDGQDLRDEP VEERRAHLAR LLGKRPPATL RLSEAFDASP RDLLASSARI
410 420 430 440 450
GFEGIVGKRK GSPYVSRRSA DWIKLKNQQR QEFVIGGYTA PKGSRSGFGA
460 470 480 490 500
LLLGVHDDKG RLRYCGNVGT GFNADRLADI KARLDRLATD DCPFKPMPDG
510 520 530 540 550
ANAKAQWVKP TLVAEVSFGE WTREDRVRQA VFQGLRTDKP ARGIVRERAA
560 570 580 590 600
PSETSPETST EASTDTPAKK QGARKSMALK ITHADRVIDA KSGITKGELA
610 620 630 640 650
AYYDAVGTLM LPHLRGRPVS LVRAPDGVGG ELFFQKHIQN REIPGVNLLD
660 670 680 690 700
PALDPGHEPL LQIDSKTGLI GAAQMNVIEL HTWNATSRAI DRPDRMTFDL
710 720 730 740 750
DPGEGVGWPQ IQEATLLVRT LLDELGLPSF LKTSGGKGMH VVVPIRRQYG
760 770 780 790 800
WDEVKGFSQA VVVHLAKTIP DRFVAKSGPR NRVGKVFVDY LRNGFGATTV
810 820 830 840 850
SAWSARSRPG LGVSVPVAWE ELPALTGAAQ WTVANVAERL ATGNKPWAAM
860
ERSRKGIAAA MKMLDYKPA
Length:869
Mass (Da):95,245
Last modified:March 7, 2011 - v1
Checksum:i82239A995EB614D1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP002417 Genomic DNA. Translation: ADU34753.1.
RefSeqiYP_004152864.1. NC_014931.1.

Genome annotation databases

EnsemblBacteriaiADU34753; ADU34753; Varpa_0532.
KEGGivpe:Varpa_0532.
PATRICi45386973. VBIVarPar156291_0549.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP002417 Genomic DNA. Translation: ADU34753.1.
RefSeqiYP_004152864.1. NC_014931.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiADU34753; ADU34753; Varpa_0532.
KEGGivpe:Varpa_0532.
PATRICi45386973. VBIVarPar156291_0549.

Phylogenomic databases

HOGENOMiHOG000222509.
KOiK01971.
OMAiHPLDYAD.

Enzyme and pathway databases

BioCyciVPAR595537:GHGJ-538-MONOMER.

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
InterProiIPR012309. DNA_ligase_ATP-dep_C.
IPR012310. DNA_ligase_ATP-dep_cent.
IPR014146. DNA_pol_LigD_ligase_dom.
IPR014144. LigD_PE_domain.
IPR014145. LigD_pol.
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. "Complete sequence of Variovorax paradoxus EPS."
    US DOE Joint Genome Institute
    Lucas S., Copeland A., Lapidus A., Cheng J.-F., Goodwin L., Pitluck S., Teshima H., Detter J.C., Han C., Tapia R., Land M., Hauser L., Kyrpides N., Ivanova N., Ovchinnikova G., Orwin P., Han J.-I.G., Woyke T.
    Submitted (NOV-2010) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: EPSImported.

Entry informationi

Entry nameiE6V5E7_VARPE
AccessioniPrimary (citable) accession number: E6V5E7
Entry historyi
Integrated into UniProtKB/TrEMBL: March 7, 2011
Last sequence update: March 7, 2011
Last modified: March 31, 2015
This is version 25 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete 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.