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B5YFH2 (PYRF_DICT6) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 41. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Orotidine 5'-phosphate decarboxylase

EC=4.1.1.23
Alternative name(s):
OMP decarboxylase
Short name=OMPDCase
Short name=OMPdecase
Gene names
Name:pyrF
Ordered Locus Names:DICTH_1461
OrganismDictyoglomus thermophilum (strain ATCC 35947 / DSM 3960 / H-6-12) [Complete proteome] [HAMAP]
Taxonomic identifier309799 [NCBI]
Taxonomic lineageBacteriaDictyoglomiDictyoglomalesDictyoglomaceaeDictyoglomus

Protein attributes

Sequence length244 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

Catalyzes the decarboxylation of orotidine 5'-monophosphate (OMP) to uridine 5'-monophosphate (UMP) By similarity. HAMAP-Rule MF_01200

Catalytic activity

Orotidine 5'-phosphate = UMP + CO2. HAMAP-Rule MF_01200

Pathway

Pyrimidine metabolism; UMP biosynthesis via de novo pathway; UMP from orotate: step 2/2. HAMAP-Rule MF_01200

Subunit structure

Homodimer By similarity. HAMAP-Rule MF_01200

Sequence similarities

Belongs to the OMP decarboxylase family. Type 1 subfamily.

Ontologies

Keywords
   Biological processPyrimidine biosynthesis
   Molecular functionDecarboxylase
Lyase
   Technical termComplete proteome
Gene Ontology (GO)
   Biological_process'de novo' UMP biosynthetic process

Inferred from electronic annotation. Source: UniProtKB-UniPathway

'de novo' pyrimidine nucleobase biosynthetic process

Inferred from electronic annotation. Source: InterPro

   Molecular_functionorotidine-5'-phosphate decarboxylase activity

Inferred from electronic annotation. Source: UniProtKB-HAMAP

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 244244Orotidine 5'-phosphate decarboxylase HAMAP-Rule MF_01200
PRO_1000164566

Regions

Region61 – 7010Substrate binding By similarity

Sites

Active site631Proton donor By similarity
Binding site121Substrate By similarity
Binding site341Substrate By similarity
Binding site1251Substrate By similarity
Binding site1871Substrate By similarity
Binding site1961Substrate By similarity
Binding site2161Substrate; via amide nitrogen By similarity
Binding site2171Substrate By similarity

Sequences

Sequence LengthMass (Da)Tools
B5YFH2 [UniParc].

Last modified November 25, 2008. Version 1.
Checksum: 15FBBFBE92E6E126

FASTA24427,966
        10         20         30         40         50         60 
MRKYDPIIVA LDFPEERKAL EVAEKIIPYV KNFKVGLELF SVAGPHIVKA LKEMGTNVFI 

        70         80         90        100        110        120 
DLKLFDIPNT VVRTLDRLLT LDPFMVTLHI LGGEEMLRES VKLVSQYKES NKTEYPYLLG 

       130        140        150        160        170        180 
VTVLTSFNEE TLRRSWGISR SLPEQVLFLA QLAQETGLDG VIASPWEIEL LRNNLRRPML 

       190        200        210        220        230        240 
IVTPGIRLTK DKTDDQQRIM TPREALERGS DYLVIGRPIT QSSDPYEVIR NIRSQIEDIV 


ESRL 

« Hide

References

[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.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP001146 Genomic DNA. Translation: ACI18378.1.
RefSeqYP_002251280.1. NC_011297.1.

3D structure databases

ProteinModelPortalB5YFH2.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING309799.DICTH_1461.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaACI18378; ACI18378; DICTH_1461.
GeneID6946149.
KEGGdth:DICTH_1461.
PATRIC21807546. VBIDicThe33784_1404.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0284.
HOGENOMHOG000226071.
KOK01591.
OMAVIASPWE.
OrthoDBEOG6N6815.

Enzyme and pathway databases

BioCycDTHE309799:GHF9-1448-MONOMER.
UniPathwayUPA00070; UER00120.

Family and domain databases

Gene3D3.20.20.70. 1 hit.
HAMAPMF_01200_B. OMPdecase_type1_B.
InterProIPR013785. Aldolase_TIM.
IPR014732. OMPdecase.
IPR018089. OMPdecase_AS.
IPR001754. OMPdeCOase_dom.
IPR011060. RibuloseP-bd_barrel.
[Graphical view]
PfamPF00215. OMPdecase. 1 hit.
[Graphical view]
SMARTSM00934. OMPdecase. 1 hit.
[Graphical view]
SUPFAMSSF51366. SSF51366. 1 hit.
TIGRFAMsTIGR01740. pyrF. 1 hit.
PROSITEPS00156. OMPDECASE. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry namePYRF_DICT6
AccessionPrimary (citable) accession number: B5YFH2
Entry history
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: November 25, 2008
Last modified: May 14, 2014
This is version 41 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PATHWAY comments

Index of metabolic and biosynthesis pathways