Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Syntrophomonas wolfei subsp. wolfei (strain DSM 2245B / Goettingen)
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

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei12 – 121SubstrateUniRule annotation
Binding sitei34 – 341SubstrateUniRule annotation
Active sitei63 – 631Proton donorUniRule annotation
Binding sitei125 – 1251SubstrateUniRule annotation
Binding sitei188 – 1881SubstrateUniRule annotation
Binding sitei197 – 1971SubstrateUniRule annotation
Binding sitei217 – 2171Substrate; via amide nitrogenUniRule annotation
Binding sitei218 – 2181SubstrateUniRule annotation

GO - Molecular functioni

  1. orotidine-5'-phosphate decarboxylase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. 'de novo' pyrimidine nucleobase biosynthetic process Source: InterPro
  2. 'de novo' UMP biosynthetic process Source: UniProtKB-UniPathway
Complete GO annotation...

Keywords - Molecular functioni

Decarboxylase, Lyase

Keywords - Biological processi

Pyrimidine biosynthesis

Enzyme and pathway databases

BioCyciSWOL335541:GHL1-1313-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:Swol_1278
OrganismiSyntrophomonas wolfei subsp. wolfei (strain DSM 2245B / Goettingen)
Taxonomic identifieri335541 [NCBI]
Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesSyntrophomonadaceaeSyntrophomonas
ProteomesiUP000001968: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 239239Orotidine 5'-phosphate decarboxylasePRO_1000138567Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi335541.Swol_1278.

Structurei

3D structure databases

ProteinModelPortaliQ0AXG7.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni61 – 7010Substrate bindingUniRule annotation

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226070.
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.

Q0AXG7-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MQAQERIILA LDVGSREQAL ALVKDLAPHV GAFKVGMQLF NSCGPSIVEE
60 70 80 90 100
INQLGGRVFL DLKFHDIPNT VAAAGRVITR LNCFMFNVHA AGGREMMRQV
110 120 130 140 150
VEEVKNEAKK LAVAAPLSLA VTVLTSISQE QLEEEIGVKG MKLKDLVVKW
160 170 180 190 200
ALMAKECGIS GVVSSPQEIE AIRAACGPEF KIVTPGIRPA WSEKNDQKRI
210 220 230
TTPGQALQMG ADFMVIGRPI TQAANPVEAA LKIIGELEE
Length:239
Mass (Da):25,824
Last modified:October 17, 2006 - v1
Checksum:i2A9DDE568B06BB1F
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000448 Genomic DNA. Translation: ABI68587.1.
RefSeqiWP_011640689.1. NC_008346.1.
YP_753958.1. NC_008346.1.

Genome annotation databases

EnsemblBacteriaiABI68587; ABI68587; Swol_1278.
GeneIDi4282001.
KEGGiswo:Swol_1278.
PATRICi23857405. VBISynWol51738_1360.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000448 Genomic DNA. Translation: ABI68587.1.
RefSeqiWP_011640689.1. NC_008346.1.
YP_753958.1. NC_008346.1.

3D structure databases

ProteinModelPortaliQ0AXG7.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi335541.Swol_1278.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABI68587; ABI68587; Swol_1278.
GeneIDi4282001.
KEGGiswo:Swol_1278.
PATRICi23857405. VBISynWol51738_1360.

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226070.
KOiK01591.
OMAiNFKIFLD.
OrthoDBiEOG6N6815.

Enzyme and pathway databases

UniPathwayiUPA00070; UER00120.
BioCyciSWOL335541:GHL1-1313-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. "The genome of Syntrophomonas wolfei: new insights into syntrophic metabolism and biohydrogen production."
    Sieber J.R., Sims D.R., Han C., Kim E., Lykidis A., Lapidus A.L., McDonnald E., Rohlin L., Culley D.E., Gunsalus R., McInerney M.J.
    Environ. Microbiol. 12:2289-2301(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 2245B / Goettingen.

Entry informationi

Entry nameiPYRF_SYNWW
AccessioniPrimary (citable) accession number: Q0AXG7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: October 17, 2006
Last modified: February 4, 2015
This is version 64 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.