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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Xylella fastidiosa (strain M12)
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 sitei20SubstrateUniRule annotation1
Binding sitei42SubstrateUniRule annotation1
Active sitei72Proton donorUniRule annotation1
Binding sitei125SubstrateUniRule annotation1
Binding sitei186SubstrateUniRule annotation1
Binding sitei195SubstrateUniRule annotation1
Binding sitei215Substrate; via amide nitrogenUniRule annotation1
Binding sitei216SubstrateUniRule 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:Xfasm12_0029
OrganismiXylella fastidiosa (strain M12)
Taxonomic identifieri405440 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaXanthomonadalesXanthomonadaceaeXylella

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10001385731 – 244Orotidine 5'-phosphate decarboxylaseAdd BLAST244

Proteomic databases

PRIDEiB0U1D6

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliB0U1D6
SMRiB0U1D6
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni70 – 79Substrate bindingUniRule annotation10

Sequence similaritiesi

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

Phylogenomic databases

HOGENOMiHOG000226070
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.

B0U1D6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MMNHTPLLLG IRERLIFALD VPSRTQALEW IDQLGDAISF YKIGMELLAS
60 70 80 90 100
GEYFQVLDDL ASRGKRVFVD LKFFDIPATV AGVIRRLSQW PISYCTIHGW
110 120 130 140 150
HAPMMQAATE ANTSNMHLLA VTVLTSMTRE DLAKMGINRE PVDVVVERAL
160 170 180 190 200
AAHMAGMSGV IASGQEAAAI RRAVGSGFSI VCPGIRTNHV PHNDQQRTIG
210 220 230 240
IKAAFANGAD AIVVGRPIRM AQDPQAAAEA MQTEIMTALT EPST
Length:244
Mass (Da):26,511
Last modified:April 8, 2008 - v1
Checksum:i6361A19E885C94CF
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000941 Genomic DNA Translation: ACA11077.1

Genome annotation databases

EnsemblBacteriaiACA11077; ACA11077; Xfasm12_0029
KEGGixfm:Xfasm12_0029

Similar proteinsi

Entry informationi

Entry nameiPYRF_XYLFM
AccessioniPrimary (citable) accession number: B0U1D6
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: April 8, 2008
Last modified: May 23, 2018
This is version 65 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

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