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Q5LND3

- PYRF_RUEPO

UniProt

Q5LND3 - PYRF_RUEPO

Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Ruegeria pomeroyi (strain ATCC 700808 / DSM 15171 / DSS-3) (Silicibacter pomeroyi)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 64 (01 Oct 2014)
      Sequence version 1 (01 Feb 2005)
      Previous versions | rss
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    • Comment

    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 sitei16 – 161SubstrateUniRule annotation
    Binding sitei38 – 381SubstrateUniRule annotation
    Active sitei68 – 681Proton donorUniRule annotation
    Binding sitei121 – 1211SubstrateUniRule annotation
    Binding sitei184 – 1841SubstrateUniRule annotation
    Binding sitei193 – 1931SubstrateUniRule annotation
    Binding sitei213 – 2131Substrate; via amide nitrogenUniRule annotation
    Binding sitei214 – 2141SubstrateUniRule 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

    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:SPO3278
    OrganismiRuegeria pomeroyi (strain ATCC 700808 / DSM 15171 / DSS-3) (Silicibacter pomeroyi)
    Taxonomic identifieri246200 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeRuegeria
    ProteomesiUP000001023: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 244244Orotidine 5'-phosphate decarboxylasePRO_0000241908Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation

    Protein-protein interaction databases

    STRINGi246200.SPO3278.

    Structurei

    3D structure databases

    ProteinModelPortaliQ5LND3.
    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.
    OMAiFMELRIA.
    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.

    Q5LND3-1 [UniParc]FASTAAdd to Basket

    « Hide

    MTDRMLADDR LIVALDVPNA VAGLALAERL GDAVSFYKIG LGMLTGGGLA    50
    LANELKQEHG KRIFLDMKLF DIGNTVEAAV RGLSQFDLDF LTVHGDPHVV 100
    RAAKEGAAGK DLKILAVTIL TSLNRDDLDA SLIKPGDVHD LVLERAARAF 150
    EAGADGVIAS PQEAAAIRAL PEAAGRLIVT PGIRPAGADL GDQKRVATPA 200
    NAIADGVDHI VVGRPVVHAP DPRAAALSIL AEMTSPQAVA PNRS 244
    Length:244
    Mass (Da):25,401
    Last modified:February 1, 2005 - v1
    Checksum:i86E394EE56788CDD
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000031 Genomic DNA. Translation: AAV96507.1.
    RefSeqiYP_168475.2. NC_003911.12.

    Genome annotation databases

    EnsemblBacteriaiAAV96507; AAV96507; SPO3278.
    GeneIDi3195326.
    KEGGisil:SPO3278.
    PATRICi23379999. VBIRuePom114501_3337.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000031 Genomic DNA. Translation: AAV96507.1 .
    RefSeqi YP_168475.2. NC_003911.12.

    3D structure databases

    ProteinModelPortali Q5LND3.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 246200.SPO3278.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAV96507 ; AAV96507 ; SPO3278 .
    GeneIDi 3195326.
    KEGGi sil:SPO3278.
    PATRICi 23379999. VBIRuePom114501_3337.

    Phylogenomic databases

    eggNOGi COG0284.
    HOGENOMi HOG000226070.
    KOi K01591.
    OMAi FMELRIA.
    OrthoDBi EOG6N6815.

    Enzyme and pathway databases

    UniPathwayi UPA00070 ; UER00120 .

    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: ATCC 700808 / DSM 15171 / DSS-3.

    Entry informationi

    Entry nameiPYRF_RUEPO
    AccessioniPrimary (citable) accession number: Q5LND3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: June 27, 2006
    Last sequence update: February 1, 2005
    Last modified: October 1, 2014
    This is version 64 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