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O29333

- PYRF_ARCFU

UniProt

O29333 - PYRF_ARCFU

Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 93 (01 Oct 2014)
      Sequence version 2 (23 Jan 2002)
      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 sitei9 – 91SubstrateUniRule annotation
    Binding sitei31 – 311SubstrateUniRule annotation
    Active sitei59 – 591Proton donorUniRule annotation
    Binding sitei114 – 1141SubstrateUniRule annotation
    Binding sitei187 – 1871Substrate; via amide nitrogenUniRule annotation
    Binding sitei188 – 1881SubstrateUniRule 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

    BioCyciAFUL224325:GJBC-951-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:AF_0929
    OrganismiArchaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
    Taxonomic identifieri224325 [NCBI]
    Taxonomic lineageiArchaeaEuryarchaeotaArchaeoglobiArchaeoglobalesArchaeoglobaceaeArchaeoglobus
    ProteomesiUP000002199: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 209209Orotidine 5'-phosphate decarboxylasePRO_0000134608Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation

    Protein-protein interaction databases

    STRINGi224325.AF0929.

    Structurei

    Secondary structure

    1
    209
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi3 – 75
    Helixi13 – 2311
    Helixi24 – 263
    Beta strandi28 – 336
    Helixi34 – 407
    Helixi44 – 496
    Beta strandi54 – 607
    Helixi64 – 7613
    Beta strandi80 – 856
    Helixi86 – 883
    Helixi90 – 10213
    Beta strandi106 – 1105
    Helixi116 – 1194
    Helixi122 – 13615
    Beta strandi140 – 1423
    Helixi148 – 15811
    Beta strandi162 – 1654
    Beta strandi169 – 1713
    Helixi175 – 1795
    Beta strandi182 – 1876
    Helixi188 – 1914
    Beta strandi192 – 1943
    Helixi196 – 20712

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4MUZX-ray1.39A/B1-209[»]
    4N2YX-ray1.55A/B/C/D1-209[»]
    ProteinModelPortaliO29333.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni57 – 6610Substrate bindingUniRule annotation
    Regioni166 – 17611Substrate bindingUniRule annotationAdd
    BLAST

    Sequence similaritiesi

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

    Phylogenomic databases

    eggNOGiCOG0284.
    KOiK01591.
    OMAiRIAFENS.

    Family and domain databases

    Gene3Di3.20.20.70. 1 hit.
    HAMAPiMF_01200_A. OMPdecase_type1_A.
    InterProiIPR013785. Aldolase_TIM.
    IPR014732. OMPdecase.
    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.

    Sequencei

    Sequence statusi: Complete.

    O29333-1 [UniParc]FASTAAdd to Basket

    « Hide

    MKQLILALDV MDGEKAMEIA KKVAEHVDRI KVNYPLVLSA GVGIMKRLSE    50
    IKPVIADFKI ADVPYTSSLI ARIAFENSAE SVIVHGFVGS DTLREVCRVA 100
    EEFGGKVYAV TELSSPGGEE FMSAVSLKIV EKAKEAGCHG LIAPSTRIER 150
    LREIRKAAGD MEILCPGIGA QKGSIEAVKY ADGIIVGRGI YASGNPAEEA 200
    RKLRRVLKI 209
    Length:209
    Mass (Da):22,538
    Last modified:January 23, 2002 - v2
    Checksum:iC6CBB39E9C105B66
    GO

    Sequence cautioni

    The sequence AAB90309.1 differs from that shown. Reason: Erroneous initiation.

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000782 Genomic DNA. Translation: AAB90309.1. Different initiation.
    PIRiA69366.
    RefSeqiNP_069762.1. NC_000917.1.

    Genome annotation databases

    EnsemblBacteriaiAAB90309; AAB90309; AF_0929.
    GeneIDi1484152.
    KEGGiafu:AF0929.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000782 Genomic DNA. Translation: AAB90309.1 . Different initiation.
    PIRi A69366.
    RefSeqi NP_069762.1. NC_000917.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    4MUZ X-ray 1.39 A/B 1-209 [» ]
    4N2Y X-ray 1.55 A/B/C/D 1-209 [» ]
    ProteinModelPortali O29333.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 224325.AF0929.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAB90309 ; AAB90309 ; AF_0929 .
    GeneIDi 1484152.
    KEGGi afu:AF0929.

    Phylogenomic databases

    eggNOGi COG0284.
    KOi K01591.
    OMAi RIAFENS.

    Enzyme and pathway databases

    UniPathwayi UPA00070 ; UER00120 .
    BioCyci AFUL224325:GJBC-951-MONOMER.

    Family and domain databases

    Gene3Di 3.20.20.70. 1 hit.
    HAMAPi MF_01200_A. OMPdecase_type1_A.
    InterProi IPR013785. Aldolase_TIM.
    IPR014732. OMPdecase.
    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.
    ProtoNeti Search...

    Publicationsi

    1. "The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus."
      Klenk H.-P., Clayton R.A., Tomb J.-F., White O., Nelson K.E., Ketchum K.A., Dodson R.J., Gwinn M.L., Hickey E.K., Peterson J.D., Richardson D.L., Kerlavage A.R., Graham D.E., Kyrpides N.C., Fleischmann R.D., Quackenbush J., Lee N.H., Sutton G.G.
      , Gill S.R., Kirkness E.F., Dougherty B.A., McKenney K., Adams M.D., Loftus B.J., Peterson S.N., Reich C.I., McNeil L.K., Badger J.H., Glodek A., Zhou L., Overbeek R., Gocayne J.D., Weidman J.F., McDonald L.A., Utterback T.R., Cotton M.D., Spriggs T., Artiach P., Kaine B.P., Sykes S.M., Sadow P.W., D'Andrea K.P., Bowman C., Fujii C., Garland S.A., Mason T.M., Olsen G.J., Fraser C.M., Smith H.O., Woese C.R., Venter J.C.
      Nature 390:364-370(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126.

    Entry informationi

    Entry nameiPYRF_ARCFU
    AccessioniPrimary (citable) accession number: O29333
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 30, 2000
    Last sequence update: January 23, 2002
    Last modified: October 1, 2014
    This is version 93 of the entry and version 2 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