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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Dictyoglomus thermophilum (strain ATCC 35947 / DSM 3960 / H-6-12)
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 sitei187 – 1871SubstrateUniRule annotation
Binding sitei196 – 1961SubstrateUniRule annotation
Binding sitei216 – 2161Substrate; via amide nitrogenUniRule annotation
Binding sitei217 – 2171SubstrateUniRule 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

BioCyciDTHE309799:GHF9-1448-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:DICTH_1461
OrganismiDictyoglomus thermophilum (strain ATCC 35947 / DSM 3960 / H-6-12)
Taxonomic identifieri309799 [NCBI]
Taxonomic lineageiBacteriaDictyoglomiDictyoglomalesDictyoglomaceaeDictyoglomus
ProteomesiUP000001733 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 244244Orotidine 5'-phosphate decarboxylasePRO_1000164566Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi309799.DICTH_1461.

Structurei

3D structure databases

ProteinModelPortaliB5YFH2.
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.
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.

B5YFH2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRKYDPIIVA LDFPEERKAL EVAEKIIPYV KNFKVGLELF SVAGPHIVKA
60 70 80 90 100
LKEMGTNVFI DLKLFDIPNT VVRTLDRLLT LDPFMVTLHI LGGEEMLRES
110 120 130 140 150
VKLVSQYKES NKTEYPYLLG VTVLTSFNEE TLRRSWGISR SLPEQVLFLA
160 170 180 190 200
QLAQETGLDG VIASPWEIEL LRNNLRRPML IVTPGIRLTK DKTDDQQRIM
210 220 230 240
TPREALERGS DYLVIGRPIT QSSDPYEVIR NIRSQIEDIV ESRL
Length:244
Mass (Da):27,966
Last modified:November 25, 2008 - v1
Checksum:i15FBBFBE92E6E126
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001146 Genomic DNA. Translation: ACI18378.1.
RefSeqiWP_012547010.1. NC_011297.1.
YP_002251280.1. NC_011297.1.

Genome annotation databases

EnsemblBacteriaiACI18378; ACI18378; DICTH_1461.
KEGGidth:DICTH_1461.
PATRICi21807546. VBIDicThe33784_1404.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001146 Genomic DNA. Translation: ACI18378.1.
RefSeqiWP_012547010.1. NC_011297.1.
YP_002251280.1. NC_011297.1.

3D structure databases

ProteinModelPortaliB5YFH2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi309799.DICTH_1461.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACI18378; ACI18378; DICTH_1461.
KEGGidth:DICTH_1461.
PATRICi21807546. VBIDicThe33784_1404.

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226071.
KOiK01591.
OMAiNFKIFLD.
OrthoDBiEOG6N6815.

Enzyme and pathway databases

UniPathwayiUPA00070; UER00120.
BioCyciDTHE309799:GHF9-1448-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 complete genome sequence of Dictyoglomus thermophilum strain ATCC 35947 / DSM 3960 / H-6-12."
    Dodson R.J., Durkin A.S., Wu M., Eisen J., Sutton G.
    Submitted (AUG-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 35947 / DSM 3960 / H-6-12.

Entry informationi

Entry nameiPYRF_DICT6
AccessioniPrimary (citable) accession number: B5YFH2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: November 25, 2008
Last modified: April 29, 2015
This is version 47 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

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.