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C5CQB2

- PYRF_VARPS

UniProt

C5CQB2 - PYRF_VARPS

Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Variovorax paradoxus (strain S110)
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi
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    • History
      Entry version 36 (01 Oct 2014)
      Sequence version 1 (28 Jul 2009)
      Previous versions | rss
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    Functioni

    Catalytic activityi

    Orotidine 5'-phosphate = UMP + CO2.UniRule annotation

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei95 – 951Proton donorUniRule 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

    BioCyciVPAR543728:GHLL-5139-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:Vapar_5082
    OrganismiVariovorax paradoxus (strain S110)
    Taxonomic identifieri543728 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesComamonadaceaeVariovorax
    ProteomesiUP000000453: Chromosome 1

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 274274Orotidine 5'-phosphate decarboxylasePRO_1000213896Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi543728.Vapar_5082.

    Structurei

    3D structure databases

    ProteinModelPortaliC5CQB2.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the OMP decarboxylase family. Type 2 subfamily.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0284.
    HOGENOMiHOG000245747.
    KOiK01591.
    OMAiCRTSNAG.
    OrthoDBiEOG6DZF33.

    Family and domain databases

    Gene3Di3.20.20.70. 1 hit.
    HAMAPiMF_01215. OMPdecase_type2.
    InterProiIPR013785. Aldolase_TIM.
    IPR018089. OMPdecase_AS.
    IPR011995. OMPdecase_type-2.
    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.
    TIGRFAMsiTIGR02127. pyrF_sub2. 1 hit.
    PROSITEiPS00156. OMPDECASE. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    C5CQB2-1 [UniParc]FASTAAdd to Basket

    « Hide

    MTFLDKLATA QQTNGSLLCV GLDPEPAKFP GQLKGDASRI YDFCARIVDA    50
    TAGLVIAFKP QIAYFAAHRA EAQLEQLMEH MRRNAPGVPV ILDAKRGDIG 100
    STAEQYAIEA FERYGADAVT LSPFMGFDSV APYLKHQGKG AFLLCRTSNP 150
    GGSDLQGQRL AGIEGQPFLY EHVARLAQGP WNLNGQLGLV VGATYPAEIE 200
    RVRELAPTVP LLIPGVGAQG GDAVATVRAG WRPDAPIIVN SSRAIIYASS 250
    GDDFAEAAQK AARSTRDALE AAKP 274
    Length:274
    Mass (Da):29,148
    Last modified:July 28, 2009 - v1
    Checksum:i95C3D943B2F0E4E1
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001635 Genomic DNA. Translation: ACS21684.1.
    RefSeqiWP_015867821.1. NC_012791.1.
    YP_002946950.1. NC_012791.1.

    Genome annotation databases

    EnsemblBacteriaiACS21684; ACS21684; Vapar_5082.
    GeneIDi7974201.
    KEGGivap:Vapar_5082.
    PATRICi24010661. VBIVarPar36677_5092.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001635 Genomic DNA. Translation: ACS21684.1 .
    RefSeqi WP_015867821.1. NC_012791.1.
    YP_002946950.1. NC_012791.1.

    3D structure databases

    ProteinModelPortali C5CQB2.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 543728.Vapar_5082.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACS21684 ; ACS21684 ; Vapar_5082 .
    GeneIDi 7974201.
    KEGGi vap:Vapar_5082.
    PATRICi 24010661. VBIVarPar36677_5092.

    Phylogenomic databases

    eggNOGi COG0284.
    HOGENOMi HOG000245747.
    KOi K01591.
    OMAi CRTSNAG.
    OrthoDBi EOG6DZF33.

    Enzyme and pathway databases

    UniPathwayi UPA00070 ; UER00120 .
    BioCyci VPAR543728:GHLL-5139-MONOMER.

    Family and domain databases

    Gene3Di 3.20.20.70. 1 hit.
    HAMAPi MF_01215. OMPdecase_type2.
    InterProi IPR013785. Aldolase_TIM.
    IPR018089. OMPdecase_AS.
    IPR011995. OMPdecase_type-2.
    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 TIGR02127. pyrF_sub2. 1 hit.
    PROSITEi PS00156. OMPDECASE. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Complete genome sequence of the metabolically versatile plant growth-promoting endophyte, Variovorax paradoxus S110."
      Han J.I., Choi H.K., Lee S.W., Orwin P.M., Kim J., Laroe S.L., Kim T.G., O'Neil J., Leadbetter J.R., Lee S.Y., Hur C.G., Spain J.C., Ovchinnikova G., Goodwin L., Han C.
      J. Bacteriol. 193:1183-1190(2011) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: S110.

    Entry informationi

    Entry nameiPYRF_VARPS
    AccessioniPrimary (citable) accession number: C5CQB2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 22, 2009
    Last sequence update: July 28, 2009
    Last modified: October 1, 2014
    This is version 36 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, Reference proteome

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3