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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Shigella flexneri
Status
Reviewed-Annotation score: -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), Orotate phosphoribosyltransferase (pyrE), Orotate phosphoribosyltransferase (pyrE), Orotate phosphoribosyltransferase (pyrE)
  2. Orotidine 5'-phosphate decarboxylase (pyrF), Orotidine 5'-phosphate decarboxylase (pyrF), Orotidine 5'-phosphate decarboxylase (pyrF), 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 sitei22SubstrateUniRule annotation1
Binding sitei44SubstrateUniRule annotation1
Active sitei73Proton donorUniRule annotation1
Binding sitei131SubstrateUniRule annotation1
Binding sitei192SubstrateUniRule annotation1
Binding sitei201SubstrateUniRule annotation1
Binding sitei221Substrate; via amide nitrogenUniRule annotation1
Binding sitei222SubstrateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDecarboxylase, Lyase
Biological processPyrimidine 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:SF1285, S1368
OrganismiShigella flexneri
Taxonomic identifieri623 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeShigella
Proteomesi
  • UP000002673 Componenti: Chromosome
  • UP000001006 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001345731 – 245Orotidine 5'-phosphate decarboxylaseAdd BLAST245

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliQ83RM1
SMRiQ83RM1
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni71 – 80Substrate bindingUniRule annotation10

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4106EG9 Bacteria
COG0284 LUCA
HOGENOMiHOG000226071
KOiK01591
OMAiNFKIFLD

Family and domain databases

Gene3Di3.20.20.70, 1 hit
HAMAPiMF_01200_B OMPdecase_type1_B, 1 hit
InterProiView protein in InterPro
IPR013785 Aldolase_TIM
IPR014732 OMPdecase
IPR018089 OMPdecase_AS
IPR001754 OMPdeCOase_dom
IPR011060 RibuloseP-bd_barrel
PANTHERiPTHR32119:SF2 PTHR32119:SF2, 1 hit
PfamiView protein in Pfam
PF00215 OMPdecase, 1 hit
SMARTiView protein in SMART
SM00934 OMPdecase, 1 hit
SUPFAMiSSF51366 SSF51366, 1 hit
TIGRFAMsiTIGR01740 pyrF, 1 hit
PROSITEiView protein in PROSITE
PS00156 OMPDECASE, 1 hit

Sequencei

Sequence statusi: Complete.

Q83RM1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTLTASSSSR AVTNSPVVVA LDYHNCDDAL SFVDKIDPRD CRLKVGKEMF
60 70 80 90 100
TLFGPQFVRE LQQRGFDIFL DLKFHDIPNT AAHAVAAAAD LGVWMVNVHA
110 120 130 140 150
SGGARMMTAA REALVPFGKD APLLIAVTVL TSMEASDLAD LGVTLSPADY
160 170 180 190 200
AERLAALTQK CDLDGVVCSA QEAVRFKQVF GQEFKLVTPG IRPQGSEAGD
210 220 230 240
QRRIMTPEQA LAAGVDYMVI GRPVTQSVDP AQTLKAINAS LQRSA
Length:245
Mass (Da):26,295
Last modified:June 1, 2003 - v1
Checksum:iEBCA7BDE333375EA
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE005674 Genomic DNA Translation: AAN42897.1
AE014073 Genomic DNA Translation: AAP16781.1
RefSeqiNP_707190.1, NC_004337.2
WP_000176258.1, NZ_MTPK01000015.1

Genome annotation databases

EnsemblBacteriaiAAN42897; AAN42897; SF1285
AAP16781; AAP16781; S1368
GeneIDi1024264
KEGGisfl:SF1285
sfx:S1368
PATRICifig|198214.7.peg.1507

Similar proteinsi

Entry informationi

Entry nameiPYRF_SHIFL
AccessioniPrimary (citable) accession number: Q83RM1
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 16, 2004
Last sequence update: June 1, 2003
Last modified: April 25, 2018
This is version 102 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome
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Main funding by: National Institutes of Health