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Q5FJB3

- PYRF_LACAC

UniProt

Q5FJB3 - PYRF_LACAC

Protein

Orotidine 5'-phosphate decarboxylase

Gene

pyrF

Organism
Lactobacillus acidophilus (strain ATCC 700396 / NCK56 / N2 / NCFM)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 63 (01 Oct 2014)
      Sequence version 1 (01 Mar 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 sitei10 – 101SubstrateUniRule annotation
    Binding sitei33 – 331SubstrateUniRule annotation
    Active sitei62 – 621Proton donorUniRule annotation
    Binding sitei123 – 1231SubstrateUniRule annotation
    Binding sitei185 – 1851SubstrateUniRule annotation
    Binding sitei194 – 1941SubstrateUniRule annotation
    Binding sitei214 – 2141Substrate; via amide nitrogenUniRule annotation
    Binding sitei215 – 2151SubstrateUniRule 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:LBA1386
    OrganismiLactobacillus acidophilus (strain ATCC 700396 / NCK56 / N2 / NCFM)
    Taxonomic identifieri272621 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesLactobacillaceaeLactobacillus
    ProteomesiUP000006381: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 235235Orotidine 5'-phosphate decarboxylasePRO_0000241868Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation

    Protein-protein interaction databases

    STRINGi272621.LBA1386.

    Structurei

    Secondary structure

    1
    235
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi5 – 84
    Helixi14 – 229
    Helixi27 – 293
    Beta strandi31 – 344
    Helixi36 – 427
    Helixi44 – 529
    Beta strandi56 – 638
    Helixi67 – 7812
    Turni79 – 813
    Beta strandi83 – 886
    Helixi89 – 913
    Helixi93 – 10614
    Beta strandi115 – 1195
    Helixi127 – 1326
    Beta strandi136 – 1383
    Helixi140 – 15314
    Beta strandi158 – 1603
    Helixi163 – 1653
    Helixi166 – 1738
    Beta strandi175 – 1817
    Helixi200 – 2056
    Beta strandi209 – 2135
    Helixi215 – 2184
    Beta strandi220 – 2223
    Helixi223 – 23412

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    3TFXX-ray2.19A/B1-235[»]
    ProteinModelPortaliQ5FJB3.
    ModBaseiSearch...
    MobiDBiSearch...

    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.
    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.

    Q5FJB3-1 [UniParc]FASTAAdd to Basket

    « Hide

    MDRPVIVALD LDNEEQLNKI LSKLGDPHDV FVKVGMELFY NAGIDVIKKL    50
    TQQGYKIFLD LKMHDIPNTV YNGAKALAKL GITFTTVHAL GGSQMIKSAK 100
    DGLIAGTPAG HSVPKLLAVT ELTSISDDVL RNEQNCRLPM AEQVLSLAKM 150
    AKHSGADGVI CSPLEVKKLH ENIGDDFLYV TPGIRPAGNA KDDQSRVATP 200
    KMAKEWGSSA IVVGRPITLA SDPKAAYEAI KKEFN 235
    Length:235
    Mass (Da):25,404
    Last modified:March 1, 2005 - v1
    Checksum:i892076F9C45D7B1F
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000033 Genomic DNA. Translation: AAV43211.1.
    RefSeqiYP_194242.1. NC_006814.3.

    Genome annotation databases

    EnsemblBacteriaiAAV43211; AAV43211; LBA1386.
    GeneIDi3252592.
    KEGGilac:LBA1386.
    PATRICi22197796. VBILacAci7974_1311.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000033 Genomic DNA. Translation: AAV43211.1 .
    RefSeqi YP_194242.1. NC_006814.3.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    3TFX X-ray 2.19 A/B 1-235 [» ]
    ProteinModelPortali Q5FJB3.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 272621.LBA1386.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAV43211 ; AAV43211 ; LBA1386 .
    GeneIDi 3252592.
    KEGGi lac:LBA1386.
    PATRICi 22197796. VBILacAci7974_1311.

    Phylogenomic databases

    eggNOGi COG0284.
    HOGENOMi HOG000226071.
    KOi K01591.
    OMAi RPITQSA.
    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 700396 / NCK56 / N2 / NCFM.

    Entry informationi

    Entry nameiPYRF_LACAC
    AccessioniPrimary (citable) accession number: Q5FJB3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: June 27, 2006
    Last sequence update: March 1, 2005
    Last modified: October 1, 2014
    This is version 63 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