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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)
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:iUMP 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 sitei124 – 1241SubstrateUniRule annotation
Binding sitei186 – 1861SubstrateUniRule annotation
Binding sitei195 – 1951SubstrateUniRule annotation
Binding sitei215 – 2151Substrate; via amide nitrogenUniRule annotation
Binding sitei216 – 2161SubstrateUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Decarboxylase, Lyase

Keywords - Biological processi

Pyrimidine biosynthesis

Enzyme and pathway databases

BioCyciLPLA220668-WGS:GSPK-2310-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:lp_2698
OrganismiLactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)
Taxonomic identifieri220668 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesLactobacillaceaeLactobacillus
ProteomesiUP000000432 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 237237Orotidine 5'-phosphate decarboxylasePRO_0000134551Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi220668.lp_2698.

Structurei

3D structure databases

ProteinModelPortaliP77888.
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.

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.

P77888-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKRPIIIALD FPTAERALAF LDQFPADLHV TVKIGMELFY AAGPSIVTDV
60 70 80 90 100
QARGHAVFLD LKLHDIPNTV ESAMRVIGRL GVTYTTVHAA GGHVMLSAAK
110 120 130 140 150
RGLVAGAMAA GVTAPKLLAI TQLTSTNQAI LNQDQQIMGT VRASVVHYAK
160 170 180 190 200
LARASDCDGV ICSAQEVQAI HTAVGADFLG ITPGIRPASA QSDDQQRVMT
210 220 230
PAAAAKAGSN GLVIGRPITQ AAEPVQAYRD IMTEWSN
Length:237
Mass (Da):24,949
Last modified:March 25, 2003 - v2
Checksum:iFB3A5D24FD4D47E7
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z54240 Genomic DNA. Translation: CAA91007.2.
AL935263 Genomic DNA. Translation: CCC79819.1.
RefSeqiWP_003642610.1. NC_004567.2.
YP_004890333.1. NC_004567.2.

Genome annotation databases

EnsemblBacteriaiCCC79819; CCC79819; lp_2698.
GeneIDi1062962.
KEGGilpl:lp_2698.
PATRICi22251301. VBILacPla27411_2258.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z54240 Genomic DNA. Translation: CAA91007.2.
AL935263 Genomic DNA. Translation: CCC79819.1.
RefSeqiWP_003642610.1. NC_004567.2.
YP_004890333.1. NC_004567.2.

3D structure databases

ProteinModelPortaliP77888.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi220668.lp_2698.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCCC79819; CCC79819; lp_2698.
GeneIDi1062962.
KEGGilpl:lp_2698.
PATRICi22251301. VBILacPla27411_2258.

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226071.
KOiK01591.
OMAiNFKIFLD.

Enzyme and pathway databases

UniPathwayiUPA00070; UER00120.
BioCyciLPLA220668-WGS:GSPK-2310-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. "Structure and organisation of the pyrimidine biosynthesis pathway genes in Lactobacillus plantarum: a PCR strategy for sequencing without cloning."
    Elagoez A., Abdi A., Hubert J.-C., Kammerer B.
    Gene 182:37-43(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 8014 / CCM 1904 / DSM 20205 / NCDO 82 / NCIB 6376.
  2. Kammerer B., Elagoz A., Abdi A., Hubert J.-C., Bringel F.
    Submitted (DEC-2003) to the EMBL/GenBank/DDBJ databases
    Cited for: SEQUENCE REVISION.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC BAA-793 / NCIMB 8826 / WCFS1.

Entry informationi

Entry nameiPYRF_LACPL
AccessioniPrimary (citable) accession number: P77888
Secondary accession number(s): F9URI0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: March 25, 2003
Last modified: January 7, 2015
This is version 96 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.