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C5CQB2

- PYRF_VARPS

UniProt

C5CQB2 - PYRF_VARPS

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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Variovorax paradoxus (strain S110)
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi

Functioni

Catalytic activityi

Orotidine 5'-phosphate = UMP + CO2.UniRule annotation

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei95 – 951Proton donorUniRule annotation

GO - Molecular functioni

  1. orotidine-5'-phosphate decarboxylase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. 'de novo' pyrimidine nucleobase biosynthetic process Source: InterPro
  2. 'de novo' UMP biosynthetic process Source: UniProtKB-UniPathway
Complete GO annotation...

Keywords - Molecular functioni

Decarboxylase, Lyase

Keywords - Biological processi

Pyrimidine biosynthesis

Enzyme and pathway databases

BioCyciVPAR543728:GHLL-5139-MONOMER.
UniPathwayiUPA00070; UER00120.

Names & Taxonomyi

Protein namesi
Recommended name:
Orotidine 5'-phosphate decarboxylaseUniRule annotation (EC:4.1.1.23UniRule annotation)
Alternative name(s):
OMP decarboxylaseUniRule annotation
Short name:
OMPDCaseUniRule annotation
Short name:
OMPdecaseUniRule annotation
Gene namesi
Name:pyrFUniRule annotation
Ordered Locus Names:Vapar_5082
OrganismiVariovorax paradoxus (strain S110)
Taxonomic identifieri543728 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesComamonadaceaeVariovorax
ProteomesiUP000000453: Chromosome 1

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 274274Orotidine 5'-phosphate decarboxylasePRO_1000213896Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi543728.Vapar_5082.

Structurei

3D structure databases

ProteinModelPortaliC5CQB2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the OMP decarboxylase family. Type 2 subfamily.UniRule annotation

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000245747.
KOiK01591.
OMAiCRTSNAG.
OrthoDBiEOG6DZF33.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01215. OMPdecase_type2.
InterProiIPR013785. Aldolase_TIM.
IPR018089. OMPdecase_AS.
IPR011995. OMPdecase_type-2.
IPR001754. OMPdeCOase_dom.
IPR011060. RibuloseP-bd_barrel.
[Graphical view]
PfamiPF00215. OMPdecase. 1 hit.
[Graphical view]
SMARTiSM00934. OMPdecase. 1 hit.
[Graphical view]
SUPFAMiSSF51366. SSF51366. 1 hit.
TIGRFAMsiTIGR02127. pyrF_sub2. 1 hit.
PROSITEiPS00156. OMPDECASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

C5CQB2-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTFLDKLATA QQTNGSLLCV GLDPEPAKFP GQLKGDASRI YDFCARIVDA
60 70 80 90 100
TAGLVIAFKP QIAYFAAHRA EAQLEQLMEH MRRNAPGVPV ILDAKRGDIG
110 120 130 140 150
STAEQYAIEA FERYGADAVT LSPFMGFDSV APYLKHQGKG AFLLCRTSNP
160 170 180 190 200
GGSDLQGQRL AGIEGQPFLY EHVARLAQGP WNLNGQLGLV VGATYPAEIE
210 220 230 240 250
RVRELAPTVP LLIPGVGAQG GDAVATVRAG WRPDAPIIVN SSRAIIYASS
260 270
GDDFAEAAQK AARSTRDALE AAKP
Length:274
Mass (Da):29,148
Last modified:July 28, 2009 - v1
Checksum:i95C3D943B2F0E4E1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001635 Genomic DNA. Translation: ACS21684.1.
RefSeqiWP_015867821.1. NC_012791.1.
YP_002946950.1. NC_012791.1.

Genome annotation databases

EnsemblBacteriaiACS21684; ACS21684; Vapar_5082.
GeneIDi7974201.
KEGGivap:Vapar_5082.
PATRICi24010661. VBIVarPar36677_5092.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001635 Genomic DNA. Translation: ACS21684.1 .
RefSeqi WP_015867821.1. NC_012791.1.
YP_002946950.1. NC_012791.1.

3D structure databases

ProteinModelPortali C5CQB2.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 543728.Vapar_5082.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACS21684 ; ACS21684 ; Vapar_5082 .
GeneIDi 7974201.
KEGGi vap:Vapar_5082.
PATRICi 24010661. VBIVarPar36677_5092.

Phylogenomic databases

eggNOGi COG0284.
HOGENOMi HOG000245747.
KOi K01591.
OMAi CRTSNAG.
OrthoDBi EOG6DZF33.

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .
BioCyci VPAR543728:GHLL-5139-MONOMER.

Family and domain databases

Gene3Di 3.20.20.70. 1 hit.
HAMAPi MF_01215. OMPdecase_type2.
InterProi IPR013785. Aldolase_TIM.
IPR018089. OMPdecase_AS.
IPR011995. OMPdecase_type-2.
IPR001754. OMPdeCOase_dom.
IPR011060. RibuloseP-bd_barrel.
[Graphical view ]
Pfami PF00215. OMPdecase. 1 hit.
[Graphical view ]
SMARTi SM00934. OMPdecase. 1 hit.
[Graphical view ]
SUPFAMi SSF51366. SSF51366. 1 hit.
TIGRFAMsi TIGR02127. pyrF_sub2. 1 hit.
PROSITEi PS00156. OMPDECASE. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Complete genome sequence of the metabolically versatile plant growth-promoting endophyte, Variovorax paradoxus S110."
    Han J.I., Choi H.K., Lee S.W., Orwin P.M., Kim J., Laroe S.L., Kim T.G., O'Neil J., Leadbetter J.R., Lee S.Y., Hur C.G., Spain J.C., Ovchinnikova G., Goodwin L., Han C.
    J. Bacteriol. 193:1183-1190(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: S110.

Entry informationi

Entry nameiPYRF_VARPS
AccessioniPrimary (citable) accession number: C5CQB2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 22, 2009
Last sequence update: July 28, 2009
Last modified: November 26, 2014
This is version 38 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3