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Q8D8J6

- PYRF_VIBVU

UniProt

Q8D8J6 - PYRF_VIBVU

Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Vibrio vulnificus (strain CMCP6)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 77 (01 Oct 2014)
      Sequence version 1 (01 Mar 2003)
      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

    BioCyciVVUL216895:GIYM-2693-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:VV1_2977
    OrganismiVibrio vulnificus (strain CMCP6)
    Taxonomic identifieri216895 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
    ProteomesiUP000002275: Chromosome 1

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 232232Orotidine 5'-phosphate decarboxylasePRO_0000134598Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation

    Protein-protein interaction databases

    STRINGi216895.VV1_2977.

    Structurei

    3D structure databases

    ProteinModelPortaliQ8D8J6.
    SMRiQ8D8J6. Positions 3-232.
    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.
    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.

    Q8D8J6-1 [UniParc]FASTAAdd to Basket

    « Hide

    MIDQKVIVAL DYDNQADALA FVDRIDPASC RLKVGKEMFT LFGPDFVREL    50
    HKRGFSVFLD LKFHDIPNTC SKAVRAAAEL GVWMVNVHAS GGERMMTASR 100
    EILEPYGKDR PLLIGVTVLT SMEQSDLAGI GLDVAPQEHV IRLATLTKNS 150
    GLDGVVCSAQ ESSLLKNELG KEFKLVTPGI RPLGSEQGDQ RRIMTPLEAV 200
    QAGSDYLVIG RPITQAVDPA AVLQAINTSL TK 232
    Length:232
    Mass (Da):25,217
    Last modified:March 1, 2003 - v1
    Checksum:iFAD79D08FBF58B02
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE016795 Genomic DNA. Translation: AAO11308.1.
    RefSeqiNP_761781.1. NC_004459.3.

    Genome annotation databases

    EnsemblBacteriaiAAO11308; AAO11308; VV1_2977.
    GeneIDi1179811.
    KEGGivvu:VV1_2977.
    PATRICi20162933. VBIVibVul94426_2941.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE016795 Genomic DNA. Translation: AAO11308.1 .
    RefSeqi NP_761781.1. NC_004459.3.

    3D structure databases

    ProteinModelPortali Q8D8J6.
    SMRi Q8D8J6. Positions 3-232.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 216895.VV1_2977.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAO11308 ; AAO11308 ; VV1_2977 .
    GeneIDi 1179811.
    KEGGi vvu:VV1_2977.
    PATRICi 20162933. VBIVibVul94426_2941.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00070 ; UER00120 .
    BioCyci VVUL216895:GIYM-2693-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. "Complete genome sequence of Vibrio vulnificus CMCP6."
      Rhee J.H., Kim S.Y., Chung S.S., Kim J.J., Moon Y.H., Jeong H., Choy H.E.
      Submitted (DEC-2002) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: CMCP6.

    Entry informationi

    Entry nameiPYRF_VIBVU
    AccessioniPrimary (citable) accession number: Q8D8J6
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 23, 2003
    Last sequence update: March 1, 2003
    Last modified: October 1, 2014
    This is version 77 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