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Q7MKX3

- PYRD_VIBVY

UniProt

Q7MKX3 - PYRD_VIBVY

Protein

Dihydroorotate dehydrogenase (quinone)

Gene

pyrD

Organism
Vibrio vulnificus (strain YJ016)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 83 (01 Oct 2014)
      Sequence version 1 (15 Dec 2003)
      Previous versions | rss
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    • Comment

    Functioni

    Catalyzes the conversion of dihydroorotate to orotate with quinone as electron acceptor.UniRule annotation

    Catalytic activityi

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

    Cofactori

    Binds 1 FMN per subunit.UniRule annotation

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei66 – 661SubstrateUniRule annotation
    Binding sitei86 – 861FMN; via amide nitrogenUniRule annotation
    Binding sitei139 – 1391FMNUniRule annotation
    Binding sitei172 – 1721FMNUniRule annotation
    Binding sitei172 – 1721SubstrateUniRule annotation
    Active sitei175 – 1751NucleophileUniRule annotation
    Binding sitei177 – 1771SubstrateUniRule annotation
    Binding sitei217 – 2171FMNUniRule annotation
    Binding sitei245 – 2451FMN; via carbonyl oxygenUniRule annotation
    Binding sitei268 – 2681FMN; via amide nitrogenUniRule annotation
    Binding sitei297 – 2971FMN; via amide nitrogenUniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi62 – 665FMNUniRule annotation
    Nucleotide bindingi318 – 3192FMNUniRule annotation

    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

    BioCyciVVUL196600:GJ9W-1711-MONOMER.
    UniPathwayiUPA00070; UER00946.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Dihydroorotate dehydrogenase (quinone)UniRule annotation (EC:1.3.5.2UniRule annotation)
    Alternative name(s):
    DHOdehaseUniRule annotation
    Short name:
    DHODUniRule annotation
    Short name:
    DHODaseUniRule annotation
    Dihydroorotate oxidaseUniRule annotation
    Gene namesi
    Name:pyrDUniRule annotation
    Ordered Locus Names:VV1654
    OrganismiVibrio vulnificus (strain YJ016)
    Taxonomic identifieri196600 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
    ProteomesiUP000002675: Chromosome I

    Subcellular locationi

    Cell membrane UniRule annotation; Peripheral membrane protein UniRule annotation

    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 – 336336Dihydroorotate dehydrogenase (quinone)PRO_0000148488Add
    BLAST

    Interactioni

    Subunit structurei

    Monomer.UniRule annotation

    Protein-protein interaction databases

    STRINGi196600.VV1654.

    Structurei

    3D structure databases

    ProteinModelPortaliQ7MKX3.
    SMRiQ7MKX3. Positions 1-336.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni111 – 1155Substrate bindingUniRule annotation
    Regioni246 – 2472Substrate bindingUniRule annotation

    Sequence similaritiesi

    Belongs to the dihydroorotate dehydrogenase family. Type 2 subfamily.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0167.
    HOGENOMiHOG000225103.
    KOiK00254.
    OMAiGECIDAF.
    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.

    Q7MKX3-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLYRLARAGF FQLDAEKAHD LAIQNFKRFT GTPIDLFYRQ QLPNRPVECM    50
    GLTFRNPVGL AAGLDKNGEC IEAFDAMGFG FVEIGTVTPR AQSGNDKPRL 100
    FRLVGAEGII NRMGFNNLGV DNLIENVKKA KYSCVLGINI GKNKDTPIEK 150
    GAEDYLICME KVYEYAGYIA VNISSPNTPG LRTLQYGEAL DELLVELKRK 200
    QAELEEKHGK YVPLALKIAP DLTDDEISQI CQSLINNKID GVIATNTTLD 250
    RTMVEGMKYA QEAGGLSGRP LQSRSTEVVR LLRKELQGNI PIIGVGGVDS 300
    YVAAKEKMLA GADLVQVYSG FIYHGPGLVR DIVKNL 336
    Length:336
    Mass (Da):36,979
    Last modified:December 15, 2003 - v1
    Checksum:i8B105A8C1F309AEF
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000037 Genomic DNA. Translation: BAC94418.1.
    RefSeqiNP_934447.1. NC_005139.1.

    Genome annotation databases

    EnsemblBacteriaiBAC94418; BAC94418; BAC94418.
    GeneIDi2624460.
    KEGGivvy:VV1654.
    PATRICi20170094. VBIVibVul40472_1632.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000037 Genomic DNA. Translation: BAC94418.1 .
    RefSeqi NP_934447.1. NC_005139.1.

    3D structure databases

    ProteinModelPortali Q7MKX3.
    SMRi Q7MKX3. Positions 1-336.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 196600.VV1654.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAC94418 ; BAC94418 ; BAC94418 .
    GeneIDi 2624460.
    KEGGi vvy:VV1654.
    PATRICi 20170094. VBIVibVul40472_1632.

    Phylogenomic databases

    eggNOGi COG0167.
    HOGENOMi HOG000225103.
    KOi K00254.
    OMAi GECIDAF.
    OrthoDBi EOG65BDN8.

    Enzyme and pathway databases

    UniPathwayi UPA00070 ; UER00946 .
    BioCyci VVUL196600:GJ9W-1711-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: YJ016.

    Entry informationi

    Entry nameiPYRD_VIBVY
    AccessioniPrimary (citable) accession number: Q7MKX3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 15, 2005
    Last sequence update: December 15, 2003
    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

    Complete proteome, Reference proteome

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3