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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
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 annotation1 Publication

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 sitei22 – 221SubstrateUniRule annotation
Binding sitei44 – 441SubstrateUniRule annotation
Active sitei73 – 731Proton donorUniRule annotation
Binding sitei131 – 1311SubstrateUniRule annotation
Binding sitei192 – 1921SubstrateUniRule annotation
Binding sitei201 – 2011SubstrateUniRule annotation
Binding sitei221 – 2211Substrate; via amide nitrogenUniRule annotation
Binding sitei222 – 2221SubstrateUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Decarboxylase, Lyase

Keywords - Biological processi

Pyrimidine biosynthesis

Enzyme and pathway databases

BioCyciSENT99287:GCTI-1716-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:STM1707
OrganismiSalmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
Taxonomic identifieri99287 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeSalmonella
ProteomesiUP000001014 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 245245Orotidine 5'-phosphate decarboxylasePRO_0000134571Add
BLAST

Proteomic databases

PRIDEiP07691.

Interactioni

Subunit structurei

Homodimer.

Protein-protein interaction databases

STRINGi99287.STM1707.

Structurei

3D structure databases

ProteinModelPortaliP07691.
SMRiP07691. Positions 12-243.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni71 – 8010Substrate bindingUniRule annotation

Sequence similaritiesi

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

Phylogenomic databases

HOGENOMiHOG000226071.
KOiK01591.
OMAiNFKIFLD.
OrthoDBiEOG6N6815.
PhylomeDBiP07691.

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.

P07691-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTFTASSSSC AITESPVVVA LDYHERDKAL AFVDKIDPRD CRLKVGKEMF
60 70 80 90 100
TLFGPQLVRD LQQRGFDVFL DLKFHDIPNT TARAVAAAAD LGVWMVNVHA
110 120 130 140 150
SGGARMMAAA RDALAPFSKD APLLIAVTVL TSMETSDLHD LGVTLSPAEH
160 170 180 190 200
AERLARLTQQ CGLDGVVCSA QEAVRFKQAF GAAFKLVTPG IRPAGSEAGD
210 220 230 240
QRRIMTPEQA LSAGVDYMVI GRPVTQSVDP AQTLKDINAS LKREA
Length:245
Mass (Da):26,328
Last modified:January 23, 2002 - v2
Checksum:i6F620C940C0044A7
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti153 – 1531R → A in CAA28973 (PubMed:2436909).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X05382 Genomic DNA. Translation: CAA28973.1.
AE006468 Genomic DNA. Translation: AAL20625.1.
PIRiA27190. DCEBOT.
RefSeqiNP_460666.1. NC_003197.1.
WP_001542125.1. NC_003197.1.

Genome annotation databases

EnsemblBacteriaiAAL20625; AAL20625; STM1707.
GeneIDi1253226.
KEGGistm:STM1707.
PATRICi32381925. VBISalEnt20916_1802.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X05382 Genomic DNA. Translation: CAA28973.1.
AE006468 Genomic DNA. Translation: AAL20625.1.
PIRiA27190. DCEBOT.
RefSeqiNP_460666.1. NC_003197.1.
WP_001542125.1. NC_003197.1.

3D structure databases

ProteinModelPortaliP07691.
SMRiP07691. Positions 12-243.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi99287.STM1707.

Proteomic databases

PRIDEiP07691.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAL20625; AAL20625; STM1707.
GeneIDi1253226.
KEGGistm:STM1707.
PATRICi32381925. VBISalEnt20916_1802.

Phylogenomic databases

HOGENOMiHOG000226071.
KOiK01591.
OMAiNFKIFLD.
OrthoDBiEOG6N6815.
PhylomeDBiP07691.

Enzyme and pathway databases

UniPathwayiUPA00070; UER00120.
BioCyciSENT99287:GCTI-1716-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

« Hide 'large scale' publications
  1. "Cloning and characterization of the pyrF operon of Salmonella typhimurium."
    Theisen M., Kelln R.A., Neuhard J.
    Eur. J. Biochem. 164:613-619(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: LT2 / SGSC1412 / ATCC 700720.

Entry informationi

Entry nameiPYRF_SALTY
AccessioniPrimary (citable) accession number: P07691
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 1, 1988
Last sequence update: January 23, 2002
Last modified: May 27, 2015
This is version 108 of the entry and version 2 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.