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Q59470

- Q59470_KLEOX

UniProt

Q59470 - Q59470_KLEOX

Protein
Submitted name:

Diol dehydrase alpha subunit

Gene

pddA

Organism
Klebsiella oxytoca
Status
Unreviewed - Annotation score: 1 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 68 (01 Oct 2014)
      Sequence version 1 (01 Nov 1996)
      Previous versions | rss
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    Functioni

    Cofactori

    Adenosylcobalamin.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi141 – 1411CalciumImported
    Sitei143 – 1431Important for catalytic activity
    Metal bindingi170 – 1701CalciumImported
    Sitei170 – 1701Important for catalytic activity
    Metal bindingi221 – 2211CalciumImported
    Metal bindingi296 – 2961CalciumImported
    Sitei296 – 2961Important for catalytic activity
    Sitei335 – 3351Important for catalytic activity
    Metal bindingi362 – 3621Calcium; via carbonyl oxygenImported

    GO - Molecular functioni

    1. cobalamin binding Source: UniProtKB-KW
    2. metal ion binding Source: UniProtKB-KW
    3. propanediol dehydratase activity Source: UniProtKB-EC

    Keywords - Molecular functioni

    LyaseUniRule annotationImported

    Keywords - Ligandi

    CalciumImported, CobalaminUniRule annotation, Cobalt, Metal-bindingImported

    Names & Taxonomyi

    Protein namesi
    Submitted name:
    Diol dehydrase alpha subunitImported (EC:4.2.1.28Imported)
    Submitted name:
    Propanediol dehydrataseImported
    Gene namesi
    Name:pddAImported
    Synonyms:pduCImported
    ORF Names:HR38_27590Imported
    OrganismiKlebsiella oxytocaImported
    Taxonomic identifieri571 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeKlebsiella
    ProteomesiUP000027606: Genome

    Interactioni

    Protein-protein interaction databases

    MINTiMINT-7997099.

    Structurei

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1DIOX-ray2.20A/L1-554[»]
    1EEXX-ray1.70A/L1-554[»]
    1EGMX-ray1.85A/L1-554[»]
    1EGVX-ray1.75A/L1-554[»]
    1IWBX-ray1.85A/L1-554[»]
    1UC4X-ray1.80A/L1-554[»]
    1UC5X-ray2.30A/L1-554[»]
    3AUJX-ray2.10A/L1-554[»]
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ59470.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the diol/glycerol dehydratase large subunit family.UniRule annotation

    Family and domain databases

    Gene3Di3.20.20.350. 1 hit.
    InterProiIPR016176. Cbl-dep_enz_cat.
    IPR003206. Diol/glycerol_deHydtase_lsu.
    [Graphical view]
    PfamiPF02286. Dehydratase_LU. 1 hit.
    [Graphical view]
    PIRSFiPIRSF018507. Prpndl_dhdrts_lg. 1 hit.
    ProDomiPD025428. Diol/glycerol_deHydtase_lsu. 1 hit.
    [Graphical view] [Entries sharing at least one domain]
    SUPFAMiSSF51703. SSF51703. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q59470-1 [UniParc]FASTAAdd to Basket

    « Hide

    MRSKRFEALA KRPVNQDGFV KEWIEEGFIA MESPNDPKPS IKIVNGAVTE    50
    LDGKPVSDFD LIDHFIARYG INLNRAEEVM AMDSVKLANM LCDPNVKRSE 100
    IVPLTTAMTP AKIVEVVSHM NVVEMMMAMQ KMRARRTPSQ QAHVTNVKDN 150
    PVQIAADAAE GAWRGFDEQE TTVAVARYAP FNAIALLVGS QVGRPGVLTQ 200
    CSLEEATELK LGMLGHTCYA ETISVYGTEP VFTDGDDTPW SKGFLASSYA 250
    SRGLKMRFTS GSGSEVQMGY AEGKSMLYLE ARCIYITKAA GVQGLQNGSV 300
    SCIGVPSAVP SGIRAVLAEN LICSSLDLEC ASSNDQTFTH SDMRRTARLL 350
    MQFLPGTDFI SSGYSAVPNY DNMFAGSNED AEDFDDYNVI QRDLKVDGGL 400
    RPVREEDVIA IRNKAARALQ AVFAGMGLPP ITDEEVEAAT YAHGSKDMPE 450
    RNIVEDIKFA QEIINKNRNG LEVVKALAQG GFTDVAQDML NIQKAKLTGD 500
    YLHTSAIIVG DGQVLSAVND VNDYAGPATG YRLQGERWEE IKNIPGALDP 550
    NEID 554
    Length:554
    Mass (Da):60,348
    Last modified:November 1, 1996 - v1
    Checksum:i5AC48A035B65331D
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    JQ478430 Genomic DNA. Translation: AFJ04717.1.
    CP008841 Genomic DNA. Translation: AIE72070.1.
    D45071 Genomic DNA. Translation: BAA08099.1.
    PIRiA56111.
    RefSeqiYP_005016275.1. NC_016612.1.

    Genome annotation databases

    GeneIDi11660425.
    KEGGikox:KOX_01455.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    JQ478430 Genomic DNA. Translation: AFJ04717.1 .
    CP008841 Genomic DNA. Translation: AIE72070.1 .
    D45071 Genomic DNA. Translation: BAA08099.1 .
    PIRi A56111.
    RefSeqi YP_005016275.1. NC_016612.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1DIO X-ray 2.20 A/L 1-554 [» ]
    1EEX X-ray 1.70 A/L 1-554 [» ]
    1EGM X-ray 1.85 A/L 1-554 [» ]
    1EGV X-ray 1.75 A/L 1-554 [» ]
    1IWB X-ray 1.85 A/L 1-554 [» ]
    1UC4 X-ray 1.80 A/L 1-554 [» ]
    1UC5 X-ray 2.30 A/L 1-554 [» ]
    3AUJ X-ray 2.10 A/L 1-554 [» ]
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    MINTi MINT-7997099.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    GeneIDi 11660425.
    KEGGi kox:KOX_01455.

    Miscellaneous databases

    EvolutionaryTracei Q59470.

    Family and domain databases

    Gene3Di 3.20.20.350. 1 hit.
    InterProi IPR016176. Cbl-dep_enz_cat.
    IPR003206. Diol/glycerol_deHydtase_lsu.
    [Graphical view ]
    Pfami PF02286. Dehydratase_LU. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF018507. Prpndl_dhdrts_lg. 1 hit.
    ProDomi PD025428. Diol/glycerol_deHydtase_lsu. 1 hit.
    [Graphical view ] [Entries sharing at least one domain ]
    SUPFAMi SSF51703. SSF51703. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Molecular cloning, sequencing, and expression of the genes encoding adenosylcobalamin-dependent diol dehydrase of Klebsiella oxytoca."
      Tobimatsu T., Hara T., Sakaguchi M., Kishimoto Y., Wada Y., Isoda M., Sakai T., Toraya T.
      J. Biol. Chem. 270:7142-7148(1995) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE.
      Strain: ATCC 8724Imported.
    2. "A new mode of B12 binding and the direct participation of a potassium ion in enzyme catalysis: X-ray structure of diol dehydratase."
      Shibata N., Masuda J., Tobimatsu T., Toraya T., Suto K., Morimoto Y., Yasuoka N.
      Structure 7:997-1008(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.20 ANGSTROMS), ACTIVE SITE.
    3. "How a protein generates a catalytic radical from coenzyme B(12): X-ray structure of a diol-dehydratase-adeninylpentylcobalamin complex."
      Masuda J., Shibata N., Morimoto Y., Toraya T., Yasuoka N.
      Structure 8:775-788(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.70 ANGSTROMS).
    4. "Substrate-induced conformational change of a coenzyme B12-dependent enzyme: crystal structure of the substrate-free form of diol dehydratase."
      Shibata N., Masuda J., Morimoto Y., Yasuoka N., Toraya T.
      Biochemistry 41:12607-12617(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.85 ANGSTROMS).
    5. "Structural rationalization for the lack of stereospecificity in coenzyme B12-dependent diol dehydratase."
      Shibata N., Nakanishi Y., Fukuoka M., Yamanishi M., Yasuoka N., Toraya T.
      J. Biol. Chem. 278:22717-22725(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.80 ANGSTROMS).
    6. "Redesign of coenzyme B(12) dependent diol dehydratase to be resistant to the mechanism-based inactivation by glycerol and act on longer chain 1,2-diols."
      Yamanishi M., Kinoshita K., Fukuoka M., Saito T., Tanokuchi A., Ikeda Y., Obayashi H., Mori K., Shibata N., Tobimatsu T., Toraya T.
      FEBS J. 279:793-804(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.10 ANGSTROMS) IN COMPLEX WITH CALCIUM.
    7. Lipinski D., Przystalowska H., Slomski R., Zeyland J.
      Submitted (JAN-2012) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE.
      Strain: ATCC 700324Imported.
    8. "Whole Genome Sequence of Klebsiella oxytoca M1."
      Shin S.H., Um Y., Cho S., Kim J., Roh H., Yang K.-S.
      Submitted (JUN-2014) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE.
      Strain: M1Imported.

    Entry informationi

    Entry nameiQ59470_KLEOX
    AccessioniPrimary (citable) accession number: Q59470
    Entry historyi
    Integrated into UniProtKB/TrEMBL: November 1, 1996
    Last sequence update: November 1, 1996
    Last modified: October 1, 2014
    This is version 68 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiUnreviewed (UniProtKB/TrEMBL)

    Miscellaneousi

    Keywords - Technical termi

    3D-structureImported, Complete proteomeImported

    External Data

    Dasty 3