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Q5L0U0

- PYRF_GEOKA

UniProt

Q5L0U0 - PYRF_GEOKA

Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Geobacillus kaustophilus (strain HTA426)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 66 (01 Oct 2014)
      Sequence version 1 (01 Feb 2005)
      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 sitei10 – 101SubstrateUniRule annotation
    Binding sitei32 – 321SubstrateUniRule annotation
    Active sitei61 – 611Proton donorUniRule annotation
    Binding sitei122 – 1221SubstrateUniRule 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

    BioCyciGKAU235909:GJO7-1230-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:GK1155
    OrganismiGeobacillus kaustophilus (strain HTA426)
    Taxonomic identifieri235909 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeGeobacillus
    ProteomesiUP000001172: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 244244Orotidine 5'-phosphate decarboxylasePRO_0000241860Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation

    Protein-protein interaction databases

    STRINGi235909.GK1155.

    Structurei

    Secondary structure

    1
    244
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi5 – 84
    Helixi14 – 218
    Helixi22 – 243
    Beta strandi30 – 334
    Helixi35 – 417
    Helixi43 – 519
    Beta strandi55 – 628
    Helixi66 – 7813
    Beta strandi82 – 876
    Helixi88 – 903
    Helixi92 – 10514
    Beta strandi108 – 1103
    Beta strandi114 – 1207
    Helixi126 – 1316
    Helixi139 – 15315
    Beta strandi157 – 1593
    Helixi162 – 17211
    Beta strandi176 – 1805
    Helixi199 – 2057
    Beta strandi208 – 2125
    Helixi214 – 2174
    Beta strandi219 – 2213
    Helixi222 – 23211

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    2YYTX-ray2.30A/B/C/D1-244[»]
    2YYUX-ray2.20A/B1-244[»]
    ProteinModelPortaliQ5L0U0.
    SMRiQ5L0U0. Positions 2-234.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ5L0U0.

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni59 – 6810Substrate 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.

    Q5L0U0-1 [UniParc]FASTAAdd to Basket

    « Hide

    MHTPFIVALD FPSKQEVERF LRPFAGTPLF VKVGMELYYQ EGPAIVAFLK    50
    EQGHAVFLDL KLHDIPNTVK QAMKGLARVG ADLVNVHAAG GRRMMEAAIE 100
    GLDAGTPSGR MRPRCIAVTQ LTSTDERMLH EELWISRPLV ETVAHYAALA 150
    KESGLDGVVC SANEAAFIKE RCGASFLAVT PGIRFADDAA HDQVRVVTPR 200
    KARALGSDYI VIGRSLTRAA DPLRTYARLQ HEWNGGERES TTPT 244
    Length:244
    Mass (Da):26,751
    Last modified:February 1, 2005 - v1
    Checksum:i41AB5BFD1923C349
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000043 Genomic DNA. Translation: BAD75440.1.
    RefSeqiYP_147008.1. NC_006510.1.

    Genome annotation databases

    EnsemblBacteriaiBAD75440; BAD75440; GK1155.
    GeneIDi3186101.
    KEGGigka:GK1155.
    PATRICi21963573. VBIGeoKau81518_1256.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000043 Genomic DNA. Translation: BAD75440.1 .
    RefSeqi YP_147008.1. NC_006510.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    2YYT X-ray 2.30 A/B/C/D 1-244 [» ]
    2YYU X-ray 2.20 A/B 1-244 [» ]
    ProteinModelPortali Q5L0U0.
    SMRi Q5L0U0. Positions 2-234.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 235909.GK1155.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAD75440 ; BAD75440 ; GK1155 .
    GeneIDi 3186101.
    KEGGi gka:GK1155.
    PATRICi 21963573. VBIGeoKau81518_1256.

    Phylogenomic databases

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

    Enzyme and pathway databases

    UniPathwayi UPA00070 ; UER00120 .
    BioCyci GKAU235909:GJO7-1230-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei Q5L0U0.

    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. "Thermoadaptation trait revealed by the genome sequence of thermophilic Geobacillus kaustophilus."
      Takami H., Takaki Y., Chee G.-J., Nishi S., Shimamura S., Suzuki H., Matsui S., Uchiyama I.
      Nucleic Acids Res. 32:6292-6303(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: HTA426.

    Entry informationi

    Entry nameiPYRF_GEOKA
    AccessioniPrimary (citable) accession number: Q5L0U0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: June 27, 2006
    Last sequence update: February 1, 2005
    Last modified: October 1, 2014
    This is version 66 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