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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
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)
  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 sitei11SubstrateUniRule annotation1
Binding sitei33SubstrateUniRule annotation1
Active sitei63Proton donorUniRule annotation1
Binding sitei113SubstrateUniRule annotation1
Binding sitei189Substrate; via amide nitrogenUniRule annotation1
Binding sitei190SubstrateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDecarboxylase, Lyase
Biological processPyrimidine biosynthesis

Enzyme and pathway databases

BioCyciTKOD69014:G1G2A-2302-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:TK2276
OrganismiThermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
Taxonomic identifieri69014 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaeThermococcus
Proteomesi
  • UP000000536 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001346171 – 213Orotidine 5'-phosphate decarboxylaseAdd BLAST213

Proteomic databases

PRIDEiQ5JDB0

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi69014.TK2276

Structurei

3D structure databases

ProteinModelPortaliQ5JDB0
SMRiQ5JDB0
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni61 – 70Substrate bindingUniRule annotation10
Regioni166 – 176Substrate bindingUniRule annotationAdd BLAST11

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiarCOG00081 Archaea
COG0284 LUCA
HOGENOMiHOG000226069
InParanoidiQ5JDB0
KOiK01591
OMAiEMSHPGA
OrthoDBiPOG093Z0B4G

Family and domain databases

Gene3Di3.20.20.70, 1 hit
HAMAPiMF_01200_A OMPdecase_type1_A, 1 hit
InterProiView protein in InterPro
IPR013785 Aldolase_TIM
IPR014732 OMPdecase
IPR018089 OMPdecase_AS
IPR001754 OMPdeCOase_dom
IPR011060 RibuloseP-bd_barrel
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.

Q5JDB0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEESRLILAL DVYDRERALE IAECTADYLW AIKVNWPLII GSGLKIITEL
60 70 80 90 100
KQVTGLPIIA DLKLADIPNT NRLIASKVFE AGADYIIAHG FVGRDSVEAV
110 120 130 140 150
MELGKTIIVV EMSHPGAKEF IQPVTDKLIE LANELEPFGV IAPATRPERV
160 170 180 190 200
SYIRSRLERG IRILTPGVGA QGGKASDAIK AGADYVIVGR SIYGSNNPRE
210
AARRLYEEIL EVV
Length:213
Mass (Da):23,352
Last modified:February 15, 2005 - v1
Checksum:iD3F7E2F1A37C9791
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP006878 Genomic DNA Translation: BAD86465.1
RefSeqiWP_011251226.1, NC_006624.1

Genome annotation databases

EnsemblBacteriaiBAD86465; BAD86465; TK2276
GeneIDi3234718
KEGGitko:TK2276
PATRICifig|69014.16.peg.2231

Similar proteinsi

Entry informationi

Entry nameiPYRF_THEKO
AccessioniPrimary (citable) accession number: Q5JDB0
Entry historyiIntegrated into UniProtKB/Swiss-Prot: August 30, 2005
Last sequence update: February 15, 2005
Last modified: May 23, 2018
This is version 87 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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