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B2I656 (PYRF_XYLF2) 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:XfasM23_0025
OrganismXylella fastidiosa (strain M23) [Complete proteome] [HAMAP]
Taxonomic identifier405441 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaXanthomonadalesXanthomonadaceaeXylella

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_1000138572

Regions

Region70 – 7910Substrate binding By similarity

Sites

Active site721Proton donor By similarity
Binding site201Substrate By similarity
Binding site421Substrate By similarity
Binding site1251Substrate By similarity
Binding site1861Substrate By similarity
Binding site1951Substrate By similarity
Binding site2151Substrate; via amide nitrogen By similarity
Binding site2161Substrate By similarity

Sequences

Sequence LengthMass (Da)Tools
B2I656 [UniParc].

Last modified June 10, 2008. Version 1.
Checksum: BC97E82166AE864D

FASTA24426,506
        10         20         30         40         50         60 
MMNHTPLLLG IRERLIFALD VPSRTQALEW IDQLGDAISF YKIGMELLAS GEYFQVLDDL 

        70         80         90        100        110        120 
ASRGKRVFVD LKFFDIPATV AGVIRRLSQW PISYCTIHGW HAPMMQAATE ANTSNMHLLA 

       130        140        150        160        170        180 
VTVLTSMTRE DLAKMGINRE PVDVVVERAL AAHMAGMSGV IASGQEAAAI RHAIGSGFSI 

       190        200        210        220        230        240 
VCPGIRTNHV PHNDQQRTIG IKAAFANGAD AIVVGRPIRM AQDPQAAAEA MQTEIMTALT 


EPST 

« Hide

References

[1]"Whole genome sequences of two Xylella fastidiosa strains (M12 and M23) causing almond leaf scorch disease in California."
Chen J., Xie G., Han S., Chertkov O., Sims D., Civerolo E.L.
J. Bacteriol. 192:4534-4534(2010) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: M23.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP001011 Genomic DNA. Translation: ACB91483.1.
RefSeqYP_001828757.1. NC_010577.1.

3D structure databases

ProteinModelPortalB2I656.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING405441.XfasM23_0025.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaACB91483; ACB91483; XfasM23_0025.
GeneID6201919.
KEGGxfn:XfasM23_0025.
PATRIC24141658. VBIXylFas85937_0032.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0284.
HOGENOMHOG000226070.
KOK01591.
OMASAYHAIK.
OrthoDBEOG6N6815.

Enzyme and pathway databases

BioCycXFAS405441:GJJI-26-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_XYLF2
AccessionPrimary (citable) accession number: B2I656
Entry history
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: June 10, 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