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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Paenibacillus sp. (strain JDR-2)
Status
Unreviewed-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), Orotate phosphoribosyltransferase (pyrE), Orotate phosphoribosyltransferase (pyrE), 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 sitei17 – 171SubstrateUniRule annotation
Binding sitei39 – 391SubstrateUniRule annotation
Active sitei68 – 681Proton donorUniRule annotation
Binding sitei129 – 1291SubstrateUniRule annotation
Binding sitei191 – 1911SubstrateUniRule annotation
Binding sitei200 – 2001SubstrateUniRule annotation
Binding sitei220 – 2201Substrate; via amide nitrogenUniRule annotation
Binding sitei221 – 2211SubstrateUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

DecarboxylaseUniRule annotation, Lyase

Keywords - Biological processi

Pyrimidine biosynthesisUniRule annotation

Enzyme and pathway databases

BioCyciPSP324057:GH5H-3953-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
Gene namesi
Name:pyrFUniRule annotation
Ordered Locus Names:Pjdr2_3860Imported
OrganismiPaenibacillus sp. (strain JDR-2)Imported
Taxonomic identifieri324057 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesPaenibacillaceaePaenibacillus
ProteomesiUP000002510 Componenti: Chromosome

Interactioni

Subunit structurei

Homodimer.UniRule annotationSAAS annotation

Protein-protein interaction databases

STRINGi324057.Pjdr2_3860.

Structurei

3D structure databases

ProteinModelPortaliC6D525.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni66 – 7510Substrate 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.

C6D525-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSLTREQAAG KVMVALDYAD AASAKRLLSE LEGIPCYMKV GMQLFYAAGP
60 70 80 90 100
SFVEELKKRG YRVFLDVKMH DIPNTVKGGS NSVTKLGVDM FNVHAAGGAA
110 120 130 140 150
MMEAAVEGAE AALASGQARP AIIAVTQLTS TNVQVLNEEI GIAGSVEQAV
160 170 180 190 200
VRYAELAKRA GLNGVVASPL EVDVIKSACG TSFQTVTPGI RPTWAATNDQ
210 220 230 240
SRIMTPREAL EQGTDYMVIG RPITAAASPR EALESIIEEL I
Length:241
Mass (Da):25,487
Last modified:September 1, 2009 - v1
Checksum:i741E997CE6A198B7
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001656 Genomic DNA. Translation: ACT02490.1.
RefSeqiWP_015845430.1. NC_012914.1.

Genome annotation databases

EnsemblBacteriaiACT02490; ACT02490; Pjdr2_3860.
KEGGipjd:Pjdr2_3860.
PATRICi22838255. VBIPaeSp118865_3841.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001656 Genomic DNA. Translation: ACT02490.1.
RefSeqiWP_015845430.1. NC_012914.1.

3D structure databases

ProteinModelPortaliC6D525.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi324057.Pjdr2_3860.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACT02490; ACT02490; Pjdr2_3860.
KEGGipjd:Pjdr2_3860.
PATRICi22838255. VBIPaeSp118865_3841.

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226071.
KOiK01591.
OMAiNFKIFLD.
OrthoDBiEOG6N6815.

Enzyme and pathway databases

UniPathwayiUPA00070; UER00120.
BioCyciPSP324057:GH5H-3953-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: JDR-2Imported.

Entry informationi

Entry nameiC6D525_PAESJ
AccessioniPrimary (citable) accession number: C6D525
Entry historyi
Integrated into UniProtKB/TrEMBL: September 1, 2009
Last sequence update: September 1, 2009
Last modified: July 22, 2015
This is version 48 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported

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.