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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Rhodopseudomonas palustris (strain BisB18)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the decarboxylation of orotidine 5'-monophosphate (OMP) to uridine 5'-monophosphate (UMP).UniRule annotation

Catalytic activityi

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

Pathway: UMP biosynthesis via de novo pathway

This protein is involved in step 2 of the subpathway that synthesizes UMP from orotate.UniRule annotation
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. Orotate phosphoribosyltransferase (pyrE)
  2. Orotidine 5'-phosphate decarboxylase (pyrF)
This subpathway is part of the pathway UMP biosynthesis via de novo pathway, which is itself part of Pyrimidine metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes UMP from orotate, the pathway UMP biosynthesis via de novo pathway and in Pyrimidine metabolism.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei16 – 161SubstrateUniRule annotation
Binding sitei38 – 381SubstrateUniRule annotation
Active sitei67 – 671Proton donorUniRule annotation
Binding sitei120 – 1201SubstrateUniRule annotation
Binding sitei181 – 1811SubstrateUniRule annotation
Binding sitei190 – 1901SubstrateUniRule annotation
Binding sitei210 – 2101Substrate; via amide nitrogenUniRule annotation
Binding sitei211 – 2111SubstrateUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Decarboxylase, Lyase

Keywords - Biological processi

Pyrimidine biosynthesis

Enzyme and pathway databases

BioCyciRPAL316056:GH3E-338-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:RPC_0333
OrganismiRhodopseudomonas palustris (strain BisB18)
Taxonomic identifieri316056 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeRhodopseudomonas
ProteomesiUP000001948 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 235235Orotidine 5'-phosphate decarboxylasePRO_0000241899Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi316056.RPC_0333.

Structurei

3D structure databases

ProteinModelPortaliQ21CH8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni65 – 7410Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the OMP decarboxylase family. Type 1 subfamily.UniRule annotation

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226070.
KOiK01591.
OMAiNFKIFLD.
OrthoDBiEOG6N6815.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01200_B. OMPdecase_type1_B.
InterProiIPR013785. Aldolase_TIM.
IPR014732. OMPdecase.
IPR018089. OMPdecase_AS.
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.
TIGRFAMsiTIGR01740. pyrF. 1 hit.
PROSITEiPS00156. OMPDECASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q21CH8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSEKLAARDR MIVALDLPSV EAAEAMIARL GDSASFYKIG YQLAYAGGLS
60 70 80 90 100
MVGRLADAGK KVFVDLKLHD IGNTVGRGVE SLSALGATFL TVHAYPQTMK
110 120 130 140 150
AAVEARGDSG LKILAVTVLT SYDDSDLQEA GYRLGVRELV EQRARQAQAI
160 170 180 190 200
GIDGLVCSPE EAAHLRGIVG RNIALVTPGI RPAGAAAGDQ KRIMTPARAI
210 220 230
AAGADYLVVG RPIVEAADPK AAASAIVEEI ATATA
Length:235
Mass (Da):24,413
Last modified:April 18, 2006 - v1
Checksum:i4D1EDFCBB9A64DB4
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000301 Genomic DNA. Translation: ABD85908.1.
RefSeqiWP_011470816.1. NC_007925.1.
YP_530227.1. NC_007925.1.

Genome annotation databases

EnsemblBacteriaiABD85908; ABD85908; RPC_0333.
KEGGirpc:RPC_0333.
PATRICi23265258. VBIRhoPal29154_0342.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000301 Genomic DNA. Translation: ABD85908.1.
RefSeqiWP_011470816.1. NC_007925.1.
YP_530227.1. NC_007925.1.

3D structure databases

ProteinModelPortaliQ21CH8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi316056.RPC_0333.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABD85908; ABD85908; RPC_0333.
KEGGirpc:RPC_0333.
PATRICi23265258. VBIRhoPal29154_0342.

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226070.
KOiK01591.
OMAiNFKIFLD.
OrthoDBiEOG6N6815.

Enzyme and pathway databases

UniPathwayiUPA00070; UER00120.
BioCyciRPAL316056:GH3E-338-MONOMER.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01200_B. OMPdecase_type1_B.
InterProiIPR013785. Aldolase_TIM.
IPR014732. OMPdecase.
IPR018089. OMPdecase_AS.
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.
TIGRFAMsiTIGR01740. pyrF. 1 hit.
PROSITEiPS00156. OMPDECASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: BisB18.

Entry informationi

Entry nameiPYRF_RHOPB
AccessioniPrimary (citable) accession number: Q21CH8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 27, 2006
Last sequence update: April 18, 2006
Last modified: April 29, 2015
This is version 60 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

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.