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O25655

- PYRD_HELPY

UniProt

O25655 - PYRD_HELPY

Protein

Dihydroorotate dehydrogenase (quinone)

Gene

pyrD

Organism
Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 107 (01 Oct 2014)
      Sequence version 1 (01 Jan 1998)
      Previous versions | rss
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    Functioni

    Catalyzes the conversion of dihydroorotate to orotate with quinone as electron acceptor.By similarity

    Catalytic activityi

    (S)-dihydroorotate + a quinone = orotate + a quinol.

    Cofactori

    Binds 1 FMN per subunit.By similarity

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei71 – 711SubstrateBy similarity
    Binding sitei91 – 911FMN; via amide nitrogenBy similarity
    Binding sitei145 – 1451FMNBy similarity
    Binding sitei178 – 1781FMNBy similarity
    Binding sitei178 – 1781SubstrateBy similarity
    Active sitei181 – 1811NucleophileBy similarity
    Binding sitei183 – 1831SubstrateBy similarity
    Binding sitei214 – 2141FMNBy similarity
    Binding sitei242 – 2421FMN; via carbonyl oxygenBy similarity
    Binding sitei262 – 2621FMN; via amide nitrogenBy similarity
    Binding sitei291 – 2911FMN; via amide nitrogenBy similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi67 – 715FMNBy similarity
    Nucleotide bindingi312 – 3132FMNBy similarity

    GO - Molecular functioni

    1. dihydroorotate oxidase activity Source: InterPro

    GO - Biological processi

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

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    Pyrimidine biosynthesis

    Keywords - Ligandi

    Flavoprotein, FMN

    Enzyme and pathway databases

    BioCyciHPY:HP1011-MONOMER.
    UniPathwayiUPA00070; UER00946.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Dihydroorotate dehydrogenase (quinone) (EC:1.3.5.2)
    Alternative name(s):
    DHOdehase
    Short name:
    DHOD
    Short name:
    DHODase
    Dihydroorotate oxidase
    Gene namesi
    Name:pyrD
    Ordered Locus Names:HP_1011
    OrganismiHelicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
    Taxonomic identifieri85962 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter
    ProteomesiUP000000429: Chromosome

    Subcellular locationi

    Cell membrane By similarity; Peripheral membrane protein By similarity

    GO - Cellular componenti

    1. plasma membrane Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cell membrane, Membrane

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 351351Dihydroorotate dehydrogenase (quinone)PRO_0000148445Add
    BLAST

    Proteomic databases

    PRIDEiO25655.

    Interactioni

    Subunit structurei

    Monomer.By similarity

    Protein-protein interaction databases

    STRINGi85962.HP1011.

    Structurei

    Secondary structure

    1
    351
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi6 – 116
    Helixi13 – 208
    Helixi23 – 3614
    Helixi48 – 503
    Beta strandi52 – 543
    Beta strandi57 – 659
    Beta strandi73 – 753
    Helixi76 – 827
    Beta strandi85 – 928
    Beta strandi105 – 1084
    Turni109 – 1124
    Beta strandi113 – 1164
    Helixi125 – 1317
    Turni136 – 1394
    Beta strandi142 – 1465
    Helixi157 – 16913
    Beta strandi173 – 1797
    Helixi193 – 20311
    Beta strandi211 – 2155
    Helixi221 – 23414
    Beta strandi238 – 2414
    Beta strandi245 – 2473
    Beta strandi256 – 2627
    Helixi263 – 2653
    Helixi266 – 28015
    Beta strandi284 – 2918
    Helixi295 – 30410
    Beta strandi307 – 3126
    Helixi313 – 3186
    Helixi321 – 33717
    Helixi342 – 3454
    Helixi348 – 3503

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1LX3model-A1-351[»]
    ProteinModelPortaliO25655.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni116 – 1205Substrate bindingBy similarity
    Regioni243 – 2442Substrate bindingBy similarity

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiCOG0167.
    KOiK00254.
    OMAiNEGHAAA.
    OrthoDBiEOG65BDN8.

    Family and domain databases

    Gene3Di3.20.20.70. 1 hit.
    HAMAPiMF_00225. DHO_dh_type2.
    InterProiIPR013785. Aldolase_TIM.
    IPR012135. Dihydroorotate_DH_1_2.
    IPR005719. Dihydroorotate_DH_2.
    IPR001295. Dihydroorotate_DH_CS.
    [Graphical view]
    PfamiPF01180. DHO_dh. 1 hit.
    [Graphical view]
    PIRSFiPIRSF000164. DHO_oxidase. 1 hit.
    TIGRFAMsiTIGR01036. pyrD_sub2. 1 hit.
    PROSITEiPS00911. DHODEHASE_1. 1 hit.
    PS00912. DHODEHASE_2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    O25655-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLYSLVKKYL FSLDAEDAHE KVCKILRMLS SSPFLCNLID SQWGYQNPKL    50
    ENEILGLHFP NPLGLAAGFD KNASMLRALM AFGFGYLEAG TLTNEAQVGN 100
    ERPRLFRHIE EESLQNAMGF NNYGAILGVR SFKRFAPYKT PIGINLGKNK 150
    HIEQAHALED YKAVLSKCLN IGDYYTFNLS SPNTPNLRDL QNKAFVHELF 200
    CMAKEMTHKP LFLKIAPDLE TDDMLEIVNS AIGAGAHGII ATNTTIDKSL 250
    VFAPKEMGGL SGKCLTKKSR EIFKELAKAF FNKSVLVSVG GISDAKEAYE 300
    RIKMGASLLQ IYSAFIYNGP NLCQNILKDL VKLLQKDGFL SVKEAIGADL 350
    R 351
    Length:351
    Mass (Da):39,002
    Last modified:January 1, 1998 - v1
    Checksum:i784D32A23A36F20C
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000511 Genomic DNA. Translation: AAD08055.1.
    PIRiC64646.
    RefSeqiNP_207801.1. NC_000915.1.
    YP_006934927.1. NC_018939.1.

    Genome annotation databases

    EnsemblBacteriaiAAD08055; AAD08055; HP_1011.
    GeneIDi13870204.
    899546.
    KEGGiheo:C694_05235.
    hpy:HP1011.
    PATRICi20593357. VBIHelPyl33062_1059.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000511 Genomic DNA. Translation: AAD08055.1 .
    PIRi C64646.
    RefSeqi NP_207801.1. NC_000915.1.
    YP_006934927.1. NC_018939.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1LX3 model - A 1-351 [» ]
    ProteinModelPortali O25655.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 85962.HP1011.

    Proteomic databases

    PRIDEi O25655.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAD08055 ; AAD08055 ; HP_1011 .
    GeneIDi 13870204.
    899546.
    KEGGi heo:C694_05235.
    hpy:HP1011.
    PATRICi 20593357. VBIHelPyl33062_1059.

    Phylogenomic databases

    eggNOGi COG0167.
    KOi K00254.
    OMAi NEGHAAA.
    OrthoDBi EOG65BDN8.

    Enzyme and pathway databases

    UniPathwayi UPA00070 ; UER00946 .
    BioCyci HPY:HP1011-MONOMER.

    Family and domain databases

    Gene3Di 3.20.20.70. 1 hit.
    HAMAPi MF_00225. DHO_dh_type2.
    InterProi IPR013785. Aldolase_TIM.
    IPR012135. Dihydroorotate_DH_1_2.
    IPR005719. Dihydroorotate_DH_2.
    IPR001295. Dihydroorotate_DH_CS.
    [Graphical view ]
    Pfami PF01180. DHO_dh. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF000164. DHO_oxidase. 1 hit.
    TIGRFAMsi TIGR01036. pyrD_sub2. 1 hit.
    PROSITEi PS00911. DHODEHASE_1. 1 hit.
    PS00912. DHODEHASE_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 700392 / 26695.

    Entry informationi

    Entry nameiPYRD_HELPY
    AccessioniPrimary (citable) accession number: O25655
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 1, 2000
    Last sequence update: January 1, 1998
    Last modified: October 1, 2014
    This is version 107 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. Helicobacter pylori
      Helicobacter pylori (strain 26695): entries and gene names
    2. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    3. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    4. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3