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B2I656

- PYRF_XYLF2

UniProt

B2I656 - PYRF_XYLF2

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Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Xylella fastidiosa (strain M23)
Status
Reviewed - 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 sitei20 – 201SubstrateUniRule annotation
Binding sitei42 – 421SubstrateUniRule annotation
Active sitei72 – 721Proton donorUniRule annotation
Binding sitei125 – 1251SubstrateUniRule annotation
Binding sitei186 – 1861SubstrateUniRule annotation
Binding sitei195 – 1951SubstrateUniRule annotation
Binding sitei215 – 2151Substrate; via amide nitrogenUniRule annotation
Binding sitei216 – 2161SubstrateUniRule 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

BioCyciXFAS405441:GJJI-26-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:XfasM23_0025
OrganismiXylella fastidiosa (strain M23)
Taxonomic identifieri405441 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaXanthomonadalesXanthomonadaceaeXylella
ProteomesiUP000001698: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 244244Orotidine 5'-phosphate decarboxylasePRO_1000138572Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi405441.XfasM23_0025.

Structurei

3D structure databases

ProteinModelPortaliB2I656.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni70 – 7910Substrate bindingUniRule annotation

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG0284.
HOGENOMiHOG000226070.
KOiK01591.
OMAiSAYHAIK.
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.

B2I656-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MMNHTPLLLG IRERLIFALD VPSRTQALEW IDQLGDAISF YKIGMELLAS
60 70 80 90 100
GEYFQVLDDL ASRGKRVFVD LKFFDIPATV AGVIRRLSQW PISYCTIHGW
110 120 130 140 150
HAPMMQAATE ANTSNMHLLA VTVLTSMTRE DLAKMGINRE PVDVVVERAL
160 170 180 190 200
AAHMAGMSGV IASGQEAAAI RHAIGSGFSI VCPGIRTNHV PHNDQQRTIG
210 220 230 240
IKAAFANGAD AIVVGRPIRM AQDPQAAAEA MQTEIMTALT EPST
Length:244
Mass (Da):26,506
Last modified:June 10, 2008 - v1
Checksum:iBC97E82166AE864D
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001011 Genomic DNA. Translation: ACB91483.1.
RefSeqiWP_011097479.1. NC_010577.1.
YP_001828757.1. NC_010577.1.

Genome annotation databases

EnsemblBacteriaiACB91483; ACB91483; XfasM23_0025.
GeneIDi6201919.
KEGGixfn:XfasM23_0025.
PATRICi24141658. VBIXylFas85937_0032.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001011 Genomic DNA. Translation: ACB91483.1 .
RefSeqi WP_011097479.1. NC_010577.1.
YP_001828757.1. NC_010577.1.

3D structure databases

ProteinModelPortali B2I656.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 405441.XfasM23_0025.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACB91483 ; ACB91483 ; XfasM23_0025 .
GeneIDi 6201919.
KEGGi xfn:XfasM23_0025.
PATRICi 24141658. VBIXylFas85937_0032.

Phylogenomic databases

eggNOGi COG0284.
HOGENOMi HOG000226070.
KOi K01591.
OMAi SAYHAIK.
OrthoDBi EOG6N6815.

Enzyme and pathway databases

UniPathwayi UPA00070 ; UER00120 .
BioCyci XFAS405441:GJJI-26-MONOMER.

Family and domain databases

Gene3Di 3.20.20.70. 1 hit.
HAMAPi MF_01200_B. OMPdecase_type1_B.
InterProi IPR013785. Aldolase_TIM.
IPR014732. OMPdecase.
IPR018089. OMPdecase_AS.
IPR001754. OMPdeCOase_dom.
IPR011060. RibuloseP-bd_barrel.
[Graphical view ]
Pfami PF00215. OMPdecase. 1 hit.
[Graphical view ]
SMARTi SM00934. OMPdecase. 1 hit.
[Graphical view ]
SUPFAMi SSF51366. SSF51366. 1 hit.
TIGRFAMsi TIGR01740. pyrF. 1 hit.
PROSITEi PS00156. OMPDECASE. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  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.

Entry informationi

Entry nameiPYRF_XYLF2
AccessioniPrimary (citable) accession number: B2I656
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: June 10, 2008
Last modified: October 1, 2014
This is version 43 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