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B5YFH2

- PYRF_DICT6

UniProt

B5YFH2 - PYRF_DICT6

Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Dictyoglomus thermophilum (strain ATCC 35947 / DSM 3960 / H-6-12)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 42 (01 Oct 2014)
      Sequence version 1 (25 Nov 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 sitei12 – 121SubstrateUniRule annotation
    Binding sitei34 – 341SubstrateUniRule annotation
    Active sitei63 – 631Proton donorUniRule annotation
    Binding sitei125 – 1251SubstrateUniRule annotation
    Binding sitei187 – 1871SubstrateUniRule annotation
    Binding sitei196 – 1961SubstrateUniRule annotation
    Binding sitei216 – 2161Substrate; via amide nitrogenUniRule annotation
    Binding sitei217 – 2171SubstrateUniRule 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

    BioCyciDTHE309799:GHF9-1448-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:DICTH_1461
    OrganismiDictyoglomus thermophilum (strain ATCC 35947 / DSM 3960 / H-6-12)
    Taxonomic identifieri309799 [NCBI]
    Taxonomic lineageiBacteriaDictyoglomiDictyoglomalesDictyoglomaceaeDictyoglomus
    ProteomesiUP000001733: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 244244Orotidine 5'-phosphate decarboxylasePRO_1000164566Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation

    Protein-protein interaction databases

    STRINGi309799.DICTH_1461.

    Structurei

    3D structure databases

    ProteinModelPortaliB5YFH2.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni61 – 7010Substrate bindingUniRule annotation

    Sequence similaritiesi

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

    Phylogenomic databases

    eggNOGiCOG0284.
    HOGENOMiHOG000226071.
    KOiK01591.
    OMAiVIASPWE.
    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.

    B5YFH2-1 [UniParc]FASTAAdd to Basket

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    MRKYDPIIVA LDFPEERKAL EVAEKIIPYV KNFKVGLELF SVAGPHIVKA    50
    LKEMGTNVFI DLKLFDIPNT VVRTLDRLLT LDPFMVTLHI LGGEEMLRES 100
    VKLVSQYKES NKTEYPYLLG VTVLTSFNEE TLRRSWGISR SLPEQVLFLA 150
    QLAQETGLDG VIASPWEIEL LRNNLRRPML IVTPGIRLTK DKTDDQQRIM 200
    TPREALERGS DYLVIGRPIT QSSDPYEVIR NIRSQIEDIV ESRL 244
    Length:244
    Mass (Da):27,966
    Last modified:November 25, 2008 - v1
    Checksum:i15FBBFBE92E6E126
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001146 Genomic DNA. Translation: ACI18378.1.
    RefSeqiYP_002251280.1. NC_011297.1.

    Genome annotation databases

    EnsemblBacteriaiACI18378; ACI18378; DICTH_1461.
    GeneIDi6946149.
    KEGGidth:DICTH_1461.
    PATRICi21807546. VBIDicThe33784_1404.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001146 Genomic DNA. Translation: ACI18378.1 .
    RefSeqi YP_002251280.1. NC_011297.1.

    3D structure databases

    ProteinModelPortali B5YFH2.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 309799.DICTH_1461.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACI18378 ; ACI18378 ; DICTH_1461 .
    GeneIDi 6946149.
    KEGGi dth:DICTH_1461.
    PATRICi 21807546. VBIDicThe33784_1404.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00070 ; UER00120 .
    BioCyci DTHE309799:GHF9-1448-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. "The complete genome sequence of Dictyoglomus thermophilum strain ATCC 35947 / DSM 3960 / H-6-12."
      Dodson R.J., Durkin A.S., Wu M., Eisen J., Sutton G.
      Submitted (AUG-2008) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 35947 / DSM 3960 / H-6-12.

    Entry informationi

    Entry nameiPYRF_DICT6
    AccessioniPrimary (citable) accession number: B5YFH2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 28, 2009
    Last sequence update: November 25, 2008
    Last modified: October 1, 2014
    This is version 42 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