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C3LNL5

- PYRF_VIBCM

UniProt

C3LNL5 - PYRF_VIBCM

Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Vibrio cholerae serotype O1 (strain M66-2)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 36 (01 Oct 2014)
      Sequence version 1 (16 Jun 2009)
      Previous versions | rss
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    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 sitei11 – 111SubstrateUniRule annotation
    Binding sitei33 – 331SubstrateUniRule annotation
    Active sitei62 – 621Proton donorUniRule annotation
    Binding sitei120 – 1201SubstrateUniRule annotation
    Binding sitei181 – 1811SubstrateUniRule annotation
    Binding sitei190 – 1901SubstrateUniRule annotation
    Binding sitei210 – 2101Substrate; via amide nitrogenUniRule annotation
    Binding sitei211 – 2111SubstrateUniRule 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

    BioCyciVCHO579112:GJAW-1898-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:VCM66_1835
    OrganismiVibrio cholerae serotype O1 (strain M66-2)
    Taxonomic identifieri579112 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
    ProteomesiUP000001217: Chromosome I

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 231231Orotidine 5'-phosphate decarboxylasePRO_1000164586Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation

    Protein-protein interaction databases

    STRINGi579112.VCM66_1835.

    Structurei

    3D structure databases

    ProteinModelPortaliC3LNL5.
    SMRiC3LNL5. Positions 2-230.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni60 – 6910Substrate bindingUniRule annotation

    Sequence similaritiesi

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

    Phylogenomic databases

    eggNOGiCOG0284.
    HOGENOMiHOG000226071.
    KOiK01591.
    OMAiVIASPHE.
    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.

    C3LNL5-1 [UniParc]FASTAAdd to Basket

    « Hide

    MNDPKVIVAL DYDNLADALA FVDKIDPSTC RLKVGKEMFT LFGPDFVREL    50
    HKRGFSVFLD LKFHDIPNTC SKAVKAAAEL GVWMVNVHAS GGERMMAASR 100
    EILEPYGKER PLLIGVTVLT SMESADLQGI GILSAPQDHV LRLATLTKNA 150
    GLDGVVCSAQ EASLLKQHLG REFKLVTPGI RPAGSEQGDQ RRIMTPAQAI 200
    ASGSDYLVIG RPITQAAHPE VVLEEINSSL V 231
    Length:231
    Mass (Da):25,003
    Last modified:June 16, 2009 - v1
    Checksum:iEB2E841A990B582C
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001233 Genomic DNA. Translation: ACP06141.1.
    RefSeqiYP_002810592.1. NC_012578.1.

    Genome annotation databases

    EnsemblBacteriaiACP06141; ACP06141; VCM66_1835.
    GeneIDi7773102.
    KEGGivcm:VCM66_1835.
    PATRICi20067410. VBIVibCho108967_1752.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001233 Genomic DNA. Translation: ACP06141.1 .
    RefSeqi YP_002810592.1. NC_012578.1.

    3D structure databases

    ProteinModelPortali C3LNL5.
    SMRi C3LNL5. Positions 2-230.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 579112.VCM66_1835.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACP06141 ; ACP06141 ; VCM66_1835 .
    GeneIDi 7773102.
    KEGGi vcm:VCM66_1835.
    PATRICi 20067410. VBIVibCho108967_1752.

    Phylogenomic databases

    eggNOGi COG0284.
    HOGENOMi HOG000226071.
    KOi K01591.
    OMAi VIASPHE.
    OrthoDBi EOG6N6815.

    Enzyme and pathway databases

    UniPathwayi UPA00070 ; UER00120 .
    BioCyci VCHO579112:GJAW-1898-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. "A recalibrated molecular clock and independent origins for the cholera pandemic clones."
      Feng L., Reeves P.R., Lan R., Ren Y., Gao C., Zhou Z., Ren Y., Cheng J., Wang W., Wang J., Qian W., Li D., Wang L.
      PLoS ONE 3:E4053-E4053(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: M66-2.

    Entry informationi

    Entry nameiPYRF_VIBCM
    AccessioniPrimary (citable) accession number: C3LNL5
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 28, 2009
    Last sequence update: June 16, 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

    Documents

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

    External Data

    Dasty 3