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B1JKQ0

- PYRF_YERPY

UniProt

B1JKQ0 - PYRF_YERPY

Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Yersinia pseudotuberculosis serotype O:3 (strain YPIII)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 48 (01 Oct 2014)
      Sequence version 1 (29 Apr 2008)
      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 sitei22 – 221SubstrateUniRule annotation
    Binding sitei44 – 441SubstrateUniRule annotation
    Active sitei73 – 731Proton donorUniRule annotation
    Binding sitei131 – 1311SubstrateUniRule annotation
    Binding sitei192 – 1921SubstrateUniRule annotation
    Binding sitei201 – 2011SubstrateUniRule annotation
    Binding sitei221 – 2211Substrate; via amide nitrogenUniRule annotation
    Binding sitei222 – 2221SubstrateUniRule 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

    BioCyciYPSE502800:GH0W-2044-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:YPK_2024
    OrganismiYersinia pseudotuberculosis serotype O:3 (strain YPIII)
    Taxonomic identifieri502800 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeYersinia
    ProteomesiUP000000721: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 245245Orotidine 5'-phosphate decarboxylasePRO_1000138576Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation

    Protein-protein interaction databases

    STRINGi502800.YPK_2024.

    Structurei

    3D structure databases

    ProteinModelPortaliB1JKQ0.
    SMRiB1JKQ0. Positions 14-243.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni71 – 8010Substrate 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.

    B1JKQ0-1 [UniParc]FASTAAdd to Basket

    « Hide

    MTSATKTNNS GSISSPIVVA LDYANKDAAL AFADQVSPQD CRLKVGKEMF    50
    TLYGPELIRD LHQRGFDVFL DLKFHDIPNT TARAVAAAAE LGVWMVNVHA 100
    SGGARMMSAA KEALLPYGAQ APLLIAVTVL TSMDGEDLRD IGITISPAEQ 150
    AERLAKLTWD CGLDGVVCSA HEAVRLKQVC GEDFSLVTPG IRPQGSEAGD 200
    QRRIMTPEQA VAAGVDYMVI GRPITQSPDP EKTLREILAS LTKVA 245
    Length:245
    Mass (Da):26,179
    Last modified:April 29, 2008 - v1
    Checksum:i2883471EBE1E381A
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000950 Genomic DNA. Translation: ACA68311.1.
    RefSeqiWP_012304080.1. NC_010465.1.
    YP_001720764.1. NC_010465.1.

    Genome annotation databases

    EnsemblBacteriaiACA68311; ACA68311; YPK_2024.
    GeneIDi6088017.
    KEGGiypy:YPK_2024.
    PATRICi18661398. VBIYerPse127545_2186.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000950 Genomic DNA. Translation: ACA68311.1 .
    RefSeqi WP_012304080.1. NC_010465.1.
    YP_001720764.1. NC_010465.1.

    3D structure databases

    ProteinModelPortali B1JKQ0.
    SMRi B1JKQ0. Positions 14-243.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 502800.YPK_2024.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACA68311 ; ACA68311 ; YPK_2024 .
    GeneIDi 6088017.
    KEGGi ypy:YPK_2024.
    PATRICi 18661398. VBIYerPse127545_2186.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00070 ; UER00120 .
    BioCyci YPSE502800:GH0W-2044-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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: YPIII.

    Entry informationi

    Entry nameiPYRF_YERPY
    AccessioniPrimary (citable) accession number: B1JKQ0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 14, 2009
    Last sequence update: April 29, 2008
    Last modified: October 1, 2014
    This is version 48 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