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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Oenococcus oeni (strain ATCC BAA-331 / PSU-1)
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

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 sitei10 – 101SubstrateUniRule annotation
Binding sitei33 – 331SubstrateUniRule annotation
Active sitei62 – 621Proton donorUniRule annotation
Binding sitei116 – 1161SubstrateUniRule annotation
Binding sitei178 – 1781SubstrateUniRule annotation
Binding sitei187 – 1871SubstrateUniRule annotation
Binding sitei207 – 2071Substrate; via amide nitrogenUniRule annotation
Binding sitei208 – 2081SubstrateUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Decarboxylase, Lyase

Keywords - Biological processi

Pyrimidine biosynthesis

Enzyme and pathway databases

BioCyciOOEN203123:GHNL-262-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:OEOE_0262
OrganismiOenococcus oeni (strain ATCC BAA-331 / PSU-1)
Taxonomic identifieri203123 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesLeuconostocaceaeOenococcus
ProteomesiUP000000774 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 228228Orotidine 5'-phosphate decarboxylasePRO_1000065924Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi203123.OEOE_0262.

Structurei

3D structure databases

ProteinModelPortaliQ04H28.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni60 – 6910Substrate bindingUniRule annotation

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226071.
KOiK01591.
OMAiNFKIFLD.
OrthoDBiEOG6N6815.

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.

Q04H28-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNKPVFIALD FPNLKTAFDF LNKFPSHEKP AVKVGMELFY AEGPKIIQQL
60 70 80 90 100
RQKGYKVFLD LKLYDIPHTV AAAVRSLLAL DVQYLTIHSL GGLKMMEAAV
110 120 130 140 150
DAAEGKIKLL AVTQLTSISA NEMRGTQLTS ATIEQSVKHL TQLALLAGVD
160 170 180 190 200
GTISSPLEAN IIKQITPDDF LKITPGIRLF NDQNGDQIRI TTPKKAKEFG
210 220
ASGLVVGRSI TQAADPLSVY RKILEEFE
Length:228
Mass (Da):25,038
Last modified:November 14, 2006 - v1
Checksum:i826FB56993F324C6
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000411 Genomic DNA. Translation: ABJ56244.1.
RefSeqiWP_002820197.1. NC_008528.1.
YP_809909.1. NC_008528.1.

Genome annotation databases

EnsemblBacteriaiABJ56244; ABJ56244; OEOE_0262.
GeneIDi4415548.
KEGGiooe:OEOE_0262.
PATRICi22798647. VBIOenOen113004_0270.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000411 Genomic DNA. Translation: ABJ56244.1.
RefSeqiWP_002820197.1. NC_008528.1.
YP_809909.1. NC_008528.1.

3D structure databases

ProteinModelPortaliQ04H28.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi203123.OEOE_0262.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABJ56244; ABJ56244; OEOE_0262.
GeneIDi4415548.
KEGGiooe:OEOE_0262.
PATRICi22798647. VBIOenOen113004_0270.

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226071.
KOiK01591.
OMAiNFKIFLD.
OrthoDBiEOG6N6815.

Enzyme and pathway databases

UniPathwayiUPA00070; UER00120.
BioCyciOOEN203123:GHNL-262-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

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC BAA-331 / PSU-1.

Entry informationi

Entry nameiPYRF_OENOB
AccessioniPrimary (citable) accession number: Q04H28
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 5, 2008
Last sequence update: November 14, 2006
Last modified: May 27, 2015
This is version 57 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

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.