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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Oligotropha carboxidovorans (strain ATCC 49405 / DSM 1227 / KCTC 32145 / OM5)
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

Pathwayi: 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)DescriptionActionsGraphical viewLength
Binding sitei17SubstrateUniRule annotation1
Binding sitei39SubstrateUniRule annotation1
Active sitei68Proton donorUniRule annotation1
Binding sitei121SubstrateUniRule annotation1
Binding sitei182SubstrateUniRule annotation1
Binding sitei191SubstrateUniRule annotation1
Binding sitei211Substrate; via amide nitrogenUniRule annotation1
Binding sitei212SubstrateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Decarboxylase, Lyase

Keywords - Biological processi

Pyrimidine biosynthesis

Enzyme and pathway databases

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:OCAR_4421, OCA5_c01100
OrganismiOligotropha carboxidovorans (strain ATCC 49405 / DSM 1227 / KCTC 32145 / OM5)
Taxonomic identifieri504832 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeOligotropha
Proteomesi
  • UP000007730 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10001385451 – 235Orotidine 5'-phosphate decarboxylaseAdd BLAST235

Proteomic databases

PRIDEiB6JCI7.

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi504832.OCA5_c01100.

Structurei

3D structure databases

ProteinModelPortaliB6JCI7.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni66 – 75Substrate bindingUniRule annotation10

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4106EG9. Bacteria.
COG0284. LUCA.
HOGENOMiHOG000226070.
KOiK01591.
OMAiNFKIFLD.
OrthoDBiPOG091H0256.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01200_B. OMPdecase_type1_B. 1 hit.
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.

B6JCI7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTQTPTNPRE RLIVALDVPD VAQASKLVAT LDDSVLFYKI GYQLAYAGGL
60 70 80 90 100
SMAQDLIGAG KKVFIDLKLH DIGNTVASGV ASIAKLGATF LTVHAYPQTM
110 120 130 140 150
KAAVEASRGT GLKILAVTVL TSYDEADLKE AGYSLGVADL VAQRARQAQA
160 170 180 190 200
IGIDGLVCSA EEAANLRAIV GEGLSLVTPG IRPAGSAVGD QKRVMTPARA
210 220 230
IAAGADYLVV GRPIVAATDP KSAANAIVAE IAVAH
Length:235
Mass (Da):24,135
Last modified:December 16, 2008 - v1
Checksum:i522F1BA2E4FF251F
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001196 Genomic DNA. Translation: ACI91567.1.
CP002826 Genomic DNA. Translation: AEI04842.1.
RefSeqiWP_012561598.1. NC_015684.1.

Genome annotation databases

EnsemblBacteriaiACI91567; ACI91567; OCAR_4421.
AEI04842; AEI04842; OCA5_c01100.
KEGGioca:OCAR_4421.
ocg:OCA5_c01100.
PATRICi22802821. VBIOliCar134280_0398.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001196 Genomic DNA. Translation: ACI91567.1.
CP002826 Genomic DNA. Translation: AEI04842.1.
RefSeqiWP_012561598.1. NC_015684.1.

3D structure databases

ProteinModelPortaliB6JCI7.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi504832.OCA5_c01100.

Proteomic databases

PRIDEiB6JCI7.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACI91567; ACI91567; OCAR_4421.
AEI04842; AEI04842; OCA5_c01100.
KEGGioca:OCAR_4421.
ocg:OCA5_c01100.
PATRICi22802821. VBIOliCar134280_0398.

Phylogenomic databases

eggNOGiENOG4106EG9. Bacteria.
COG0284. LUCA.
HOGENOMiHOG000226070.
KOiK01591.
OMAiNFKIFLD.
OrthoDBiPOG091H0256.

Enzyme and pathway databases

UniPathwayiUPA00070; UER00120.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_01200_B. OMPdecase_type1_B. 1 hit.
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...

Entry informationi

Entry nameiPYRF_OLICO
AccessioniPrimary (citable) accession number: B6JCI7
Secondary accession number(s): F8BRD8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: December 16, 2008
Last modified: November 2, 2016
This is version 50 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

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 one 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.