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Q9KQT7

- PYRF_VIBCH

UniProt

Q9KQT7 - PYRF_VIBCH

Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 83 (01 Oct 2014)
      Sequence version 1 (01 Oct 2000)
      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 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: TIGR

    GO - Biological processi

    1. 'de novo' pyrimidine nucleobase biosynthetic process Source: InterPro
    2. 'de novo' UMP biosynthetic process Source: UniProtKB-UniPathway
    3. pyrimidine ribonucleotide biosynthetic process Source: TIGR

    Keywords - Molecular functioni

    Decarboxylase, Lyase

    Keywords - Biological processi

    Pyrimidine biosynthesis

    Enzyme and pathway databases

    BioCyciVCHO:VC1911-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:VC_1911
    OrganismiVibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
    Taxonomic identifieri243277 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
    ProteomesiUP000000584: Chromosome 1

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 231231Orotidine 5'-phosphate decarboxylasePRO_0000134596Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation

    Protein-protein interaction databases

    STRINGi243277.VC1911.

    Structurei

    Secondary structure

    1
    231
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi6 – 105
    Helixi15 – 228
    Helixi27 – 293
    Beta strandi31 – 355
    Helixi36 – 5217
    Beta strandi57 – 637
    Helixi67 – 7913
    Beta strandi83 – 886
    Helixi89 – 913
    Helixi93 – 10311
    Helixi104 – 1096
    Beta strandi112 – 1165
    Helixi124 – 1296
    Helixi136 – 14914
    Beta strandi153 – 1564
    Helixi159 – 16911
    Beta strandi173 – 1786
    Beta strandi191 – 1933
    Helixi196 – 2016
    Beta strandi205 – 2095
    Helixi211 – 2144
    Helixi219 – 22911

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    3LDVX-ray1.77A/B1-231[»]
    3UWQX-ray1.80A/B1-231[»]
    ProteinModelPortaliQ9KQT7.
    SMRiQ9KQT7. Positions 2-230.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ9KQT7.

    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.
    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.

    Q9KQT7-1 [UniParc]FASTAAdd to Basket

    « Hide

    MNDPKVIVAL DYDNLADALA FVDKIDPSTC RLKVGKEMFT LFGPDFVREL    50
    HKRGFSVFLD LKFHDIPNTC SKAVKAAAEL GVWMVNVHAS GGERMMAASR 100
    EILEPYGKER PLLIGVTVLT SMESADLQGI GILSAPQDHV LRLATLTKNA 150
    GLDGVVCSAQ EASLLKQHLG REFKLVTPGI RPAGSEQGDQ RRIMTPAQAI 200
    ASGSDYLVIG RPITQAAHPE VVLEEINSSL V 231
    Length:231
    Mass (Da):25,003
    Last modified:October 1, 2000 - v1
    Checksum:iEB2E841A990B582C
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE003852 Genomic DNA. Translation: AAF95059.1.
    PIRiA82143.
    RefSeqiNP_231545.1. NC_002505.1.

    Genome annotation databases

    EnsemblBacteriaiAAF95059; AAF95059; VC_1911.
    GeneIDi2613540.
    KEGGivch:VC1911.
    PATRICi20082866. VBIVibCho83274_1828.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE003852 Genomic DNA. Translation: AAF95059.1 .
    PIRi A82143.
    RefSeqi NP_231545.1. NC_002505.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    3LDV X-ray 1.77 A/B 1-231 [» ]
    3UWQ X-ray 1.80 A/B 1-231 [» ]
    ProteinModelPortali Q9KQT7.
    SMRi Q9KQT7. Positions 2-230.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 243277.VC1911.

    Protocols and materials databases

    DNASUi 2613540.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAF95059 ; AAF95059 ; VC_1911 .
    GeneIDi 2613540.
    KEGGi vch:VC1911.
    PATRICi 20082866. VBIVibCho83274_1828.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00070 ; UER00120 .
    BioCyci VCHO:VC1911-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei Q9KQT7.

    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 39315 / El Tor Inaba N16961.

    Entry informationi

    Entry nameiPYRF_VIBCH
    AccessioniPrimary (citable) accession number: Q9KQT7
    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

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3