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Protein
Submitted name:

Putative ATP-dependent DNA ligase YkoU

Gene

ykoU3

Organism
Sinorhizobium fredii USDA 257
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: UniProtKB-EC
  3. DNA primase activity Source: InterPro

GO - Biological processi

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

Keywords - Molecular functioni

LigaseImported

Names & Taxonomyi

Protein namesi
Submitted name:
Putative ATP-dependent DNA ligase YkoUImported (EC:6.5.1.1Imported)
Gene namesi
Name:ykoU3Imported
ORF Names:USDA257_c52060Imported
OrganismiSinorhizobium fredii USDA 257Imported
Taxonomic identifieri1185652 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeSinorhizobium/Ensifer groupSinorhizobium
ProteomesiUP000006180: Chromosome

Family & Domainsi

Phylogenomic databases

KOiK01971.

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.
IPR002755. DNA_primase_S.
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.
PF01896. DNA_primase_S. 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.

I3XCX5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAARSEPLSE YNRRRDFSKT REPKGAVART HPGQKRFLVQ KHDATRLHYD
60 70 80 90 100
FRLEWEGVLK SWAVTRGPSL NPEDKRLAIR TEDHPLAYGD FEGTIPEGEY
110 120 130 140 150
GGGTVMLWDT GWWEPEDDPE KGLKKGKLAF RLHGSRMKGG WALVRMRPRD
160 170 180 190 200
GEKRESWLLV KQDDDVASED GESLIKQHVV SARTGRTMDE IAEGRGEKRA
210 220 230 240 250
RVWHSNKSTA ANLNAGAVSQ DEGRSKRRAR KSSVKPPAFR PPQLATLVTK
260 270 280 290 300
APAGDDWLNE AKFDGYRLIA AVGGGIARCY TRNGLDWTEK FPTIAAALAE
310 320 330 340 350
LDCDSALIDG EVVALADQGS NFSALQKALR TGASMRFYAF DLIELDEKDL
360 370 380 390 400
SRRPLVERKE KLAALLDSLG TTATIQYSEH VRGNGEHILA AICKAGQEGI
410 420 430 440 450
IAKEAKAPYR SGRTRSWLKV KCTKRQEFVI GGYTPSTKKG RAFASLLLGT
460 470 480 490 500
FEGGKLIYRG GVGTGFGEKV MEELAAAFAK RQRPTSPFDQ VPRERSRDAV
510 520 530 540 550
WLKPDLVAEV DFAEFTADGH IRHGSFEGLR EDREAKTVKL ETAKPTDAEP
560 570 580 590 600
GAAKGKSSAK TRTASPTKGD ADILGVHISH PDRILFEGQG ITKIDLARYY
610 620 630 640 650
AVVAERMLPF AADHPVSLVR CPQGGQRQCF FQKHANEGFP EAIREVPITE
660 670 680 690 700
SSGETENYMY VHDAKGLVAA VQMGTLEFHI WGATIDRLEK PDRLVFDLDP
710 720 730 740 750
DPSVDFATVK AAATTLRDEL AEIGLKTVAM VTGGKGVHVI VPLRPHAEWD
760 770 780 790 800
EAKGFAKRLA QTFAERDPEH FVATMSKAKR KGRIFIDWLR NDRGATAIAP
810 820 830 840 850
YSTRARAGGP VATPVSWDEL EALDAANTFH IADIIERIEA GTDPWREIGE
860
IKQSLTKKML NSTIS
Length:865
Mass (Da):95,657
Last modified:September 5, 2012 - v1
Checksum:i0B1F1E741DC7B5AA
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP003563 Genomic DNA. Translation: AFL53731.1.
RefSeqiYP_006400488.1. NC_018000.1.

Genome annotation databases

EnsemblBacteriaiAFL53731; AFL53731; USDA257_c52060.
GeneIDi13065142.
KEGGisfd:USDA257_c52060.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP003563 Genomic DNA. Translation: AFL53731.1.
RefSeqiYP_006400488.1. NC_018000.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAFL53731; AFL53731; USDA257_c52060.
GeneIDi13065142.
KEGGisfd:USDA257_c52060.

Phylogenomic databases

KOiK01971.

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.
IPR002755. DNA_primase_S.
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.
PF01896. DNA_primase_S. 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 Genome Sequence of the Broad-Host-Range Strain Sinorhizobium fredii USDA257."
    Schuldes J., Rodriguez Orbegoso M., Schmeisser C., Krishnan H.B., Daniel R., Streit W.R.
    J. Bacteriol. 194:4483-4483(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: USDA 257Imported.

Entry informationi

Entry nameiI3XCX5_RHIFR
AccessioniPrimary (citable) accession number: I3XCX5
Entry historyi
Integrated into UniProtKB/TrEMBL: September 5, 2012
Last sequence update: September 5, 2012
Last modified: March 4, 2015
This is version 17 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.