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B0U1D6

- PYRF_XYLFM

UniProt

B0U1D6 - PYRF_XYLFM

Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Xylella fastidiosa (strain M12)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 51 (01 Oct 2014)
      Sequence version 1 (08 Apr 2008)
      Previous versions | rss
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    • Comment

    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

    Keywords - Molecular functioni

    Decarboxylase, Lyase

    Keywords - Biological processi

    Pyrimidine biosynthesis

    Enzyme and pathway databases

    BioCyciXFAS405440:GH0D-30-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:Xfasm12_0029
    OrganismiXylella fastidiosa (strain M12)
    Taxonomic identifieri405440 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaXanthomonadalesXanthomonadaceaeXylella
    ProteomesiUP000008539: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 244244Orotidine 5'-phosphate decarboxylasePRO_1000138573Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation

    Protein-protein interaction databases

    STRINGi405440.Xfasm12_0029.

    Structurei

    3D structure databases

    ProteinModelPortaliB0U1D6.
    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.
    OMAiRPITQSA.
    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.

    B0U1D6-1 [UniParc]FASTAAdd to Basket

    « Hide

    MMNHTPLLLG IRERLIFALD VPSRTQALEW IDQLGDAISF YKIGMELLAS    50
    GEYFQVLDDL ASRGKRVFVD LKFFDIPATV AGVIRRLSQW PISYCTIHGW 100
    HAPMMQAATE ANTSNMHLLA VTVLTSMTRE DLAKMGINRE PVDVVVERAL 150
    AAHMAGMSGV IASGQEAAAI RRAVGSGFSI VCPGIRTNHV PHNDQQRTIG 200
    IKAAFANGAD AIVVGRPIRM AQDPQAAAEA MQTEIMTALT EPST 244
    Length:244
    Mass (Da):26,511
    Last modified:April 8, 2008 - v1
    Checksum:i6361A19E885C94CF
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000941 Genomic DNA. Translation: ACA11077.1.
    RefSeqiYP_001774707.1. NC_010513.1.

    Genome annotation databases

    EnsemblBacteriaiACA11077; ACA11077; Xfasm12_0029.
    GeneIDi6121507.
    KEGGixfm:Xfasm12_0029.
    PATRICi24136102. VBIXylFas124301_0034.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000941 Genomic DNA. Translation: ACA11077.1 .
    RefSeqi YP_001774707.1. NC_010513.1.

    3D structure databases

    ProteinModelPortali B0U1D6.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 405440.Xfasm12_0029.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACA11077 ; ACA11077 ; Xfasm12_0029 .
    GeneIDi 6121507.
    KEGGi xfm:Xfasm12_0029.
    PATRICi 24136102. VBIXylFas124301_0034.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00070 ; UER00120 .
    BioCyci XFAS405440:GH0D-30-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: M12.

    Entry informationi

    Entry nameiPYRF_XYLFM
    AccessioniPrimary (citable) accession number: B0U1D6
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 14, 2009
    Last sequence update: April 8, 2008
    Last modified: October 1, 2014
    This is version 51 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