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B9LZK2 (PYRF_GEODF) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 37. 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:Geob_2402
OrganismGeobacter daltonii (strain DSM 22248 / JCM 15807 / FRC-32) [Complete proteome] [HAMAP]
Taxonomic identifier316067 [NCBI]
Taxonomic lineageBacteriaProteobacteriaDeltaproteobacteriaDesulfuromonadalesGeobacteraceaeGeobacter

Protein attributes

Sequence length239 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 – 239239Orotidine 5'-phosphate decarboxylase HAMAP-Rule MF_01200
PRO_1000164571

Regions

Region64 – 7310Substrate binding By similarity

Sites

Active site661Proton donor By similarity
Binding site151Substrate By similarity
Binding site371Substrate By similarity
Binding site1261Substrate 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
B9LZK2 [UniParc].

Last modified March 24, 2009. Version 1.
Checksum: E5FB83DE1E2E4BF6

FASTA23925,577
        10         20         30         40         50         60 
MTRDEARAKI IFALDVNEFS DVEKWADLLS PHVGMFKVGK QLYTACGPAV VRMIQKYGGE 

        70         80         90        100        110        120 
VFLDLKYHDI PNTVAMASLE AARMGVKLFN LHALGGYEMM AKTVETLDKE FKGEERGKVL 

       130        140        150        160        170        180 
AVTILTSSNE QTLQEVGINL PVPEMVVKLA ALAKKAGIDG VVASPQEVPL IREACGNDFL 

       190        200        210        220        230 
IVTPGVRPAF AAADDQKRIM TPAEAVKSGA DYLVIGRPIA AAPNPAEAAQ AIVAEIVAG 

« Hide

References

[1]"Complete sequence of Geobacter sp. FRC-32."
US DOE Joint Genome Institute
Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Bruce D., Goodwin L., Pitluck S., Saunders E., Brettin T., Detter J.C., Han C., Larimer F., Land M., Hauser L., Kyrpides N., Ovchinnikova G., Kostka J., Richardson P.
Submitted (JAN-2009) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: DSM 22248 / JCM 15807 / FRC-32.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP001390 Genomic DNA. Translation: ACM20755.1.
RefSeqYP_002537856.1. NC_011979.1.

3D structure databases

ProteinModelPortalB9LZK2.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING316067.Geob_2402.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaACM20755; ACM20755; Geob_2402.
GeneID7363916.
KEGGgeo:Geob_2402.
PATRIC22011445. VBIGeoSp137169_2484.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0284.
HOGENOMHOG000226070.
KOK01591.
OrthoDBEOG6N6815.

Enzyme and pathway databases

BioCycGSP316067:GHSV-2429-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_GEODF
AccessionPrimary (citable) accession number: B9LZK2
Entry history
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: March 24, 2009
Last modified: May 14, 2014
This is version 37 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