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D3V8R3

- D3V8R3_XENNA

UniProt

D3V8R3 - D3V8R3_XENNA

Protein

3-isopropylmalate dehydrogenase

Gene

leuB

Organism
Xenorhabdus nematophila (strain ATCC 19061 / DSM 3370 / LMG 1036 / NCIB 9965 / AN6)
Status
Unreviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 31 (01 Oct 2014)
      Sequence version 1 (20 Apr 2010)
      Previous versions | rss
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    Functioni

    Catalyzes the oxidation of 3-carboxy-2-hydroxy-4-methylpentanoate (3-isopropylmalate) to 3-carboxy-4-methyl-2-oxopentanoate. The product decarboxylates to 4-methyl-2 oxopentanoate.UniRule annotationSAAS annotation

    Catalytic activityi

    (2R,3S)-3-isopropylmalate + NAD+ = 4-methyl-2-oxopentanoate + CO2 + NADH.UniRule annotationSAAS annotation

    Cofactori

    Binds 1 magnesium or manganese ion per subunit.UniRule annotationSAAS annotation

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei115 – 1151SubstrateUniRule annotation
    Binding sitei125 – 1251SubstrateUniRule annotation
    Binding sitei154 – 1541SubstrateUniRule annotation
    Sitei161 – 1611Important for catalysisUniRule annotation
    Sitei211 – 2111Important for catalysisUniRule annotation
    Metal bindingi243 – 2431Magnesium or manganeseUniRule annotation
    Binding sitei243 – 2431SubstrateUniRule annotation
    Metal bindingi267 – 2671Magnesium or manganeseUniRule annotation
    Metal bindingi271 – 2711Magnesium or manganeseUniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi94 – 10714NADUniRule annotationAdd
    BLAST
    Nucleotide bindingi301 – 31313NADUniRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. 3-isopropylmalate dehydrogenase activity Source: UniProtKB-HAMAP
    2. magnesium ion binding Source: InterPro
    3. NAD binding Source: InterPro

    GO - Biological processi

    1. leucine biosynthetic process Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    OxidoreductaseUniRule annotationSAAS annotationImported

    Keywords - Biological processi

    Amino-acid biosynthesis, Branched-chain amino acid biosynthesis, Leucine biosynthesisUniRule annotationSAAS annotation

    Keywords - Ligandi

    MagnesiumUniRule annotationSAAS annotation, ManganeseUniRule annotationSAAS annotation, Metal-bindingUniRule annotationSAAS annotation, NADUniRule annotationSAAS annotation

    Enzyme and pathway databases

    BioCyciXNEM406817:GHY4-1044-MONOMER.
    UniPathwayiUPA00048; UER00072.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    3-isopropylmalate dehydrogenaseUniRule annotation (EC:1.1.1.85UniRule annotation)
    Alternative name(s):
    3-IPM-DHUniRule annotation
    Beta-IPM dehydrogenaseUniRule annotation
    Gene namesi
    Name:leuBUniRule annotationImported
    Ordered Locus Names:XNC1_1040Imported
    OrganismiXenorhabdus nematophila (strain ATCC 19061 / DSM 3370 / LMG 1036 / NCIB 9965 / AN6)Imported
    Taxonomic identifieri406817 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeXenorhabdus
    ProteomesiUP000008075: Chromosome

    Subcellular locationi

    Cytoplasm UniRule annotationSAAS annotation

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    CytoplasmUniRule annotationSAAS annotation

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotationSAAS annotation

    Structurei

    3D structure databases

    ProteinModelPortaliD3V8R3.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the isocitrate and isopropylmalate dehydrogenases family. LeuB type 1 subfamily.UniRule annotation

    Phylogenomic databases

    HOGENOMiHOG000021112.
    KOiK00052.

    Family and domain databases

    Gene3Di3.40.718.10. 1 hit.
    HAMAPiMF_01033. LeuB_type1.
    InterProiIPR019818. IsoCit/isopropylmalate_DH_CS.
    IPR001804. Isocitrate/isopropylmalate_DH.
    IPR024084. IsoPropMal-DH-like_dom.
    IPR004429. Isopropylmalate_DH.
    [Graphical view]
    PANTHERiPTHR11835. PTHR11835. 1 hit.
    PfamiPF00180. Iso_dh. 1 hit.
    [Graphical view]
    TIGRFAMsiTIGR00169. leuB. 1 hit.
    PROSITEiPS00470. IDH_IMDH. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    D3V8R3-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSSSQSISNN TIANKQKANH FHIAVLPGDG IGPEVMKQAY KILDAIRHRF    50
    NIRITTSEYD IGGIAIDRHG SPLPQETVIG CEKADAILFG SVGGPKWEHL 100
    PPSQQPERGA LLPLRKHFKL FSNLRPARLY RGLESFCPLR HDIATKGFDI 150
    LCVRELTGGI YFGQPKGREG KGKYERAFDT EIYHRFEIER IAHIAFQSAR 200
    KRRHKVTSID KANVLQSSVL WREIVSEIAK DYPDVEINHM YIDNATMQLI 250
    KNPAQFDVLL CSNIFGDILS DECAMITGSM GMLPSASLNE KGFGLYEPAG 300
    GSAPDIAGKN IANPIAQILS VALLLRYSFE CNDAANAIEQ AINQALEQGY 350
    RTADLTSNDN TISTDEMGDI IARYITEEYR KTISLSSLT 389
    Length:389
    Mass (Da):43,187
    Last modified:April 20, 2010 - v1
    Checksum:i19BE10E3F3374F27
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    FN667742 Genomic DNA. Translation: CBJ89111.1.
    RefSeqiWP_013183629.1. NC_014228.1.
    YP_003711322.1. NC_014228.1.

    Genome annotation databases

    EnsemblBacteriaiCBJ89111; CBJ89111; XNC1_1040.
    GeneIDi9433081.
    KEGGixne:XNC1_1040.
    PATRICi42461937. VBIXenNem38452_0958.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    FN667742 Genomic DNA. Translation: CBJ89111.1 .
    RefSeqi WP_013183629.1. NC_014228.1.
    YP_003711322.1. NC_014228.1.

    3D structure databases

    ProteinModelPortali D3V8R3.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai CBJ89111 ; CBJ89111 ; XNC1_1040 .
    GeneIDi 9433081.
    KEGGi xne:XNC1_1040.
    PATRICi 42461937. VBIXenNem38452_0958.

    Phylogenomic databases

    HOGENOMi HOG000021112.
    KOi K00052.

    Enzyme and pathway databases

    UniPathwayi UPA00048 ; UER00072 .
    BioCyci XNEM406817:GHY4-1044-MONOMER.

    Family and domain databases

    Gene3Di 3.40.718.10. 1 hit.
    HAMAPi MF_01033. LeuB_type1.
    InterProi IPR019818. IsoCit/isopropylmalate_DH_CS.
    IPR001804. Isocitrate/isopropylmalate_DH.
    IPR024084. IsoPropMal-DH-like_dom.
    IPR004429. Isopropylmalate_DH.
    [Graphical view ]
    PANTHERi PTHR11835. PTHR11835. 1 hit.
    Pfami PF00180. Iso_dh. 1 hit.
    [Graphical view ]
    TIGRFAMsi TIGR00169. leuB. 1 hit.
    PROSITEi PS00470. IDH_IMDH. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Complete genome sequence of Xenorhabdus nematophila (strain ATCC 19061 / DSM 3370 / LMG 1036 / NCIB 9965 / AN6)."
      Goodrich-Blair H., Barbazuk B., Bode H.B., Darby C., Du Z., Forst S., Gaudriault S., Goldman B.S., Goodner B., Henkhaus J., Latreille P., Medigue C., Miller N., Norton S., Ogier J.C., Rouy Z., Slater S., Suen G.
      Submitted (FEB-2010) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 19061 / DSM 3370 / LMG 1036 / NCIB 9965 / AN6Imported.
    2. "The entomopathogenic bacterial endosymbionts xenorhabdus and photorhabdus: convergent lifestyles from divergent genomes."
      Chaston J.M., Suen G., Tucker S.L., Andersen A.W., Bhasin A., Bode E., Bode H.B., Brachmann A.O., Cowles C.E., Cowles K.N., Darby C., de Leon L., Drace K., Du Z., Givaudan A., Herbert Tran E.E., Jewell K.A., Knack J.J.
      , Krasomil-Osterfeld K.C., Kukor R., Lanois A., Latreille P., Leimgruber N.K., Lipke C.M., Liu R., Lu X., Martens E.C., Marri P.R., Medigue C., Menard M.L., Miller N.M., Morales-Soto N., Norton S., Ogier J.C., Orchard S.S., Park D., Park Y., Qurollo B.A., Sugar D.R., Richards G.R., Rouy Z., Slominski B., Slominski K., Snyder H., Tjaden B.C., van der Hoeven R., Welch R.D., Wheeler C., Xiang B., Barbazuk B., Gaudriault S., Goodner B., Slater S.C., Forst S., Goldman B.S., Goodrich-Blair H.
      PLoS ONE 6:e27909-e27909(2011) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 19061 / DSM 3370 / LMG 1036 / NCIB 9965 / AN6Imported.

    Entry informationi

    Entry nameiD3V8R3_XENNA
    AccessioniPrimary (citable) accession number: D3V8R3
    Entry historyi
    Integrated into UniProtKB/TrEMBL: April 20, 2010
    Last sequence update: April 20, 2010
    Last modified: October 1, 2014
    This is version 31 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiUnreviewed (UniProtKB/TrEMBL)

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteomeImported

    External Data

    Dasty 3