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Q9LCT0

- PYRF_BRADU

UniProt

Q9LCT0 - PYRF_BRADU

Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Bradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 83 (01 Oct 2014)
      Sequence version 1 (01 Oct 2000)
      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 sitei17 – 171SubstrateUniRule annotation
    Binding sitei39 – 391SubstrateUniRule annotation
    Active sitei68 – 681Proton donorUniRule annotation
    Binding sitei121 – 1211SubstrateUniRule annotation
    Binding sitei182 – 1821SubstrateUniRule annotation
    Binding sitei191 – 1911SubstrateUniRule annotation
    Binding sitei211 – 2111Substrate; via amide nitrogenUniRule annotation
    Binding sitei212 – 2121SubstrateUniRule 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

    BioCyciBJAP224911:GJEJ-689-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:blr0683
    OrganismiBradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)
    Taxonomic identifieri224911 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeBradyrhizobium
    ProteomesiUP000002526: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 237237Orotidine 5'-phosphate decarboxylasePRO_0000134529Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation

    Protein-protein interaction databases

    STRINGi224911.blr0683.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9LCT0.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni66 – 7510Substrate bindingUniRule annotation

    Sequence similaritiesi

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

    Phylogenomic databases

    eggNOGiCOG0284.
    HOGENOMiHOG000226070.
    KOiK01591.
    OrthoDBiEOG6N6815.
    PhylomeDBiQ9LCT0.

    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.

    Q9LCT0-1 [UniParc]FASTAAdd to Basket

    « Hide

    MTPAEIAPKD RLIVALDLPS VDAAEAMIAR LGDSVTFYKI GYRLAYAGGL    50
    PLVARLADKG KKVFLDLKLH DIGNTVAQGV ESITRLGATF LTVHAYPQTM 100
    KGAVEGRGGS NLKILAVTVL TSYNEDDLHA AGFRLGVAEL VEARAQQAQV 150
    LGIDGLVSSP EEVGALRKIV GHQMSLVTPG IRPAGSASGD QKRIMTPGRA 200
    ITAGADYLVV GRPVVEAAEP KAIADAIQAE IGQALGA 237
    Length:237
    Mass (Da):24,673
    Last modified:October 1, 2000 - v1
    Checksum:i08BFC448A96F5A75
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Y09633 Genomic DNA. Translation: CAB91880.1.
    BA000040 Genomic DNA. Translation: BAC45948.1.
    RefSeqiNP_767323.1. NC_004463.1.

    Genome annotation databases

    EnsemblBacteriaiBAC45948; BAC45948; BAC45948.
    GeneIDi1049301.
    KEGGibja:blr0683.
    PATRICi21184860. VBIBraJap65052_0704.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Y09633 Genomic DNA. Translation: CAB91880.1 .
    BA000040 Genomic DNA. Translation: BAC45948.1 .
    RefSeqi NP_767323.1. NC_004463.1.

    3D structure databases

    ProteinModelPortali Q9LCT0.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 224911.blr0683.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAC45948 ; BAC45948 ; BAC45948 .
    GeneIDi 1049301.
    KEGGi bja:blr0683.
    PATRICi 21184860. VBIBraJap65052_0704.

    Phylogenomic databases

    eggNOGi COG0284.
    HOGENOMi HOG000226070.
    KOi K01591.
    OrthoDBi EOG6N6815.
    PhylomeDBi Q9LCT0.

    Enzyme and pathway databases

    UniPathwayi UPA00070 ; UER00120 .
    BioCyci BJAP224911:GJEJ-689-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. "Phosphatidylcholine levels in Bradyrhizobium japonicum membranes are critical for an efficient symbiosis with the soybean host plant."
      Minder A.C., de Rudder K.E.E., Narberhaus F., Fischer H.-M., Hennecke H., Geiger O.
      Mol. Microbiol. 39:1186-1198(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: USDA 110spc4.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110.

    Entry informationi

    Entry nameiPYRF_BRADU
    AccessioniPrimary (citable) accession number: Q9LCT0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 23, 2002
    Last sequence update: October 1, 2000
    Last modified: October 1, 2014
    This is version 83 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