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A9BQY2

- RHMD_DELAS

UniProt

A9BQY2 - RHMD_DELAS

Protein

L-rhamnonate dehydratase

Gene

rhmD

Organism
Delftia acidovorans (strain DSM 14801 / SPH-1)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 37 (01 Oct 2014)
      Sequence version 2 (14 Oct 2008)
      Previous versions | rss
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    Functioni

    Catalyzes the dehydration of L-rhamnonate to 2-keto-3-deoxy-L-rhamnonate (KDR).UniRule annotation

    Catalytic activityi

    L-rhamnonate = 2-dehydro-3-deoxy-L-rhamnonate + H2O.UniRule annotation

    Cofactori

    Binds 1 magnesium ion per subunit.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei23 – 231SubstrateUniRule annotation
    Binding sitei49 – 491SubstrateUniRule annotation
    Metal bindingi215 – 2151MagnesiumUniRule annotation
    Metal bindingi241 – 2411MagnesiumUniRule annotation
    Metal bindingi269 – 2691MagnesiumUniRule annotation
    Sitei292 – 2921Increases basicity of active site HisUniRule annotation
    Active sitei319 – 3191Proton acceptorUniRule annotation
    Binding sitei339 – 3391SubstrateUniRule annotation
    Sitei339 – 3391Transition state stabilizerUniRule annotation

    GO - Molecular functioni

    1. L-rhamnonate dehydratase activity Source: UniProtKB-HAMAP
    2. magnesium ion binding Source: UniProtKB-HAMAP

    GO - Biological processi

    1. cellular amino acid catabolic process Source: InterPro

    Keywords - Molecular functioni

    Lyase

    Keywords - Ligandi

    Magnesium, Metal-binding

    Enzyme and pathway databases

    BioCyciDACI398578:GHK3-291-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    L-rhamnonate dehydrataseUniRule annotation (EC:4.2.1.90UniRule annotation)
    Short name:
    RhamDUniRule annotation
    Gene namesi
    Name:rhmDUniRule annotation
    Ordered Locus Names:Daci_0291
    OrganismiDelftia acidovorans (strain DSM 14801 / SPH-1)
    Taxonomic identifieri398578 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesComamonadaceaeDelftia
    ProteomesiUP000000784: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 395395L-rhamnonate dehydratasePRO_0000351690Add
    BLAST

    Interactioni

    Subunit structurei

    Homooctamer; tetramer of dimers.UniRule annotation

    Protein-protein interaction databases

    STRINGi398578.Daci_0291.

    Structurei

    3D structure databases

    ProteinModelPortaliA9BQY2.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the mandelate racemase/muconate lactonizing enzyme family. RhamD subfamily.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG4948.
    HOGENOMiHOG000113755.
    KOiK12661.
    OrthoDBiEOG68Q0M0.

    Family and domain databases

    Gene3Di3.20.20.120. 1 hit.
    3.30.390.10. 1 hit.
    HAMAPiMF_01288. Rhamnon_dehydrat.
    InterProiIPR029065. Enolase_C-like.
    IPR029017. Enolase_N_like.
    IPR023444. L-Rhamnon_dehydrat.
    IPR018110. Mandel_Rmase/mucon_lact_enz_CS.
    IPR013342. Mandelate_racemase_C.
    IPR013341. Mandelate_racemase_N.
    IPR001354. MR_MLE.
    [Graphical view]
    PANTHERiPTHR13794. PTHR13794. 1 hit.
    PfamiPF01188. MR_MLE. 1 hit.
    PF02746. MR_MLE_N. 1 hit.
    [Graphical view]
    SMARTiSM00922. MR_MLE. 1 hit.
    [Graphical view]
    SUPFAMiSSF51604. SSF51604. 1 hit.
    SSF54826. SSF54826. 1 hit.
    PROSITEiPS00908. MR_MLE_1. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    A9BQY2-1 [UniParc]FASTAAdd to Basket

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    MTQIPTIKQV RAFTLKGGGA DYHDQSDGHW IDDHIATPMA KYPEYRQSRR    50
    SFGINVLGTL VVEIEDSAGR VGFAVTTGGE PAAYIVEKHL ARFLEGARVT 100
    DIERIWDQMY LSTLYYGRKG IVINTISGVD LALWDLLGKV RGEPVHQLLG 150
    GAVRDELQFY ATGARPDLAQ KMGFIGGKMP LHHGPAEGEE GLRRNLQELA 200
    TMRERVGPDF WLMLDCWMSL DVNYATRLAQ GAQAHGLKWI EEALPPDDYW 250
    GYAALRKNVP TGMLVTTGEH EATRWGFRQL LEMGCCDIIQ PDVGWCGGIT 300
    ELLKISALAD AHQALVIPHG SSVYSYHFVA TRHNSPFAEF LMMAPKADEV 350
    VPMFHPQLLG EPVPVNGRMR LSALDRPGFG VELNPECALH RPYTH 395
    Length:395
    Mass (Da):43,944
    Last modified:October 14, 2008 - v2
    Checksum:i96CD5CB9833E4E1F
    GO

    Sequence cautioni

    The sequence ABX32937.1 differs from that shown. Reason: Erroneous initiation.

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000884 Genomic DNA. Translation: ABX32937.1. Different initiation.
    RefSeqiYP_001561322.1. NC_010002.1.

    Genome annotation databases

    EnsemblBacteriaiABX32937; ABX32937; Daci_0291.
    GeneIDi5745827.
    KEGGidac:Daci_0291.
    PATRICi21634395. VBIDelAci41351_0303.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000884 Genomic DNA. Translation: ABX32937.1 . Different initiation.
    RefSeqi YP_001561322.1. NC_010002.1.

    3D structure databases

    ProteinModelPortali A9BQY2.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 398578.Daci_0291.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ABX32937 ; ABX32937 ; Daci_0291 .
    GeneIDi 5745827.
    KEGGi dac:Daci_0291.
    PATRICi 21634395. VBIDelAci41351_0303.

    Phylogenomic databases

    eggNOGi COG4948.
    HOGENOMi HOG000113755.
    KOi K12661.
    OrthoDBi EOG68Q0M0.

    Enzyme and pathway databases

    BioCyci DACI398578:GHK3-291-MONOMER.

    Family and domain databases

    Gene3Di 3.20.20.120. 1 hit.
    3.30.390.10. 1 hit.
    HAMAPi MF_01288. Rhamnon_dehydrat.
    InterProi IPR029065. Enolase_C-like.
    IPR029017. Enolase_N_like.
    IPR023444. L-Rhamnon_dehydrat.
    IPR018110. Mandel_Rmase/mucon_lact_enz_CS.
    IPR013342. Mandelate_racemase_C.
    IPR013341. Mandelate_racemase_N.
    IPR001354. MR_MLE.
    [Graphical view ]
    PANTHERi PTHR13794. PTHR13794. 1 hit.
    Pfami PF01188. MR_MLE. 1 hit.
    PF02746. MR_MLE_N. 1 hit.
    [Graphical view ]
    SMARTi SM00922. MR_MLE. 1 hit.
    [Graphical view ]
    SUPFAMi SSF51604. SSF51604. 1 hit.
    SSF54826. SSF54826. 1 hit.
    PROSITEi PS00908. MR_MLE_1. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Complete sequence of Delftia acidovorans DSM 14801 / SPH-1."
      Copeland A., Lucas S., Lapidus A., Barry K., Glavina del Rio T., Dalin E., Tice H., Pitluck S., Lowry S., Clum A., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Kim E., Schleheck D., Richardson P.
      Submitted (NOV-2007) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: DSM 14801 / SPH-1.

    Entry informationi

    Entry nameiRHMD_DELAS
    AccessioniPrimary (citable) accession number: A9BQY2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 14, 2008
    Last sequence update: October 14, 2008
    Last modified: October 1, 2014
    This is version 37 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Reaction proceeds via a syn dehydration.UniRule annotation

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3