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P12013

- 6PGDH_BACSU

UniProt

P12013 - 6PGDH_BACSU

Protein

6-phosphogluconate dehydrogenase, NAD(+)-dependent, decarboxylating

Gene

gntZ

Organism
Bacillus subtilis (strain 168)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 116 (01 Oct 2014)
      Sequence version 1 (01 Oct 1989)
      Previous versions | rss
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    Functioni

    Catalyzes the oxidative decarboxylation of 6-phosphogluconate to ribulose 5-phosphate and CO2, with concomitant reduction of NAD to NADH. Does not contribute to oxidative pentose phosphate (PP) pathway fluxes during growth on glucose. The functional role of GntZ remains obscure.1 Publication

    Catalytic activityi

    6-phospho-D-gluconate + NAD+ = D-ribulose 5-phosphate + CO2 + NADH.1 Publication

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei101 – 1011NADBy similarity
    Binding sitei101 – 1011SubstrateBy similarity
    Active sitei181 – 1811Proton acceptorBy similarity
    Active sitei188 – 1881Proton donorBy similarity
    Binding sitei189 – 1891SubstrateBy similarity
    Binding sitei259 – 2591Substrate; via amide nitrogenBy similarity
    Binding sitei286 – 2861SubstrateBy similarity
    Binding sitei445 – 4451Substrate; shared with dimeric partnerBy similarity
    Binding sitei451 – 4511Substrate; shared with dimeric partnerBy similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi9 – 146NADBy similarity
    Nucleotide bindingi32 – 343NADBy similarity
    Nucleotide bindingi73 – 753NADBy similarity

    GO - Molecular functioni

    1. NADP binding Source: InterPro
    2. phosphogluconate dehydrogenase (decarboxylating) activity Source: InterPro

    GO - Biological processi

    1. D-gluconate metabolic process Source: UniProtKB-KW
    2. pentose-phosphate shunt Source: InterPro

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    Gluconate utilization

    Keywords - Ligandi

    NAD

    Enzyme and pathway databases

    BioCyciBSUB:BSU40080-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    6-phosphogluconate dehydrogenase, NAD(+)-dependent, decarboxylating (EC:1.1.1.343)
    Gene namesi
    Name:gntZ
    Ordered Locus Names:BSU40080
    OrganismiBacillus subtilis (strain 168)
    Taxonomic identifieri224308 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
    ProteomesiUP000001570: Chromosome

    Organism-specific databases

    GenoListiBSU40080. [Micado]

    Pathology & Biotechi

    Disruption phenotypei

    Cells lacking this gene exhibit no detectable phenotype on glucose as the sole carbon source, and they grow normally on gluconate.1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 4684686-phosphogluconate dehydrogenase, NAD(+)-dependent, decarboxylatingPRO_0000090026Add
    BLAST

    Proteomic databases

    PaxDbiP12013.

    Interactioni

    Subunit structurei

    Homodimer.By similarity

    Protein-protein interaction databases

    STRINGi224308.BSU40080.

    Structurei

    3D structure databases

    ProteinModelPortaliP12013.
    SMRiP12013. Positions 1-468.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni127 – 1293Substrate bindingBy similarity
    Regioni184 – 1852Substrate bindingBy similarity

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiCOG0362.
    HOGENOMiHOG000255147.
    KOiK00033.
    OMAiHYEDTER.
    OrthoDBiEOG6MSS4W.
    PhylomeDBiP12013.

    Family and domain databases

    Gene3Di1.10.1040.10. 1 hit.
    1.20.5.320. 1 hit.
    3.40.50.720. 1 hit.
    InterProiIPR008927. 6-PGluconate_DH_C-like.
    IPR006114. 6PGDH_C.
    IPR006113. 6PGDH_decarbox.
    IPR006115. 6PGDH_NADP-bd.
    IPR006184. 6PGdom_BS.
    IPR013328. DH_multihelical.
    IPR012284. Fibritin/6PGD_C-extension.
    IPR016040. NAD(P)-bd_dom.
    [Graphical view]
    PfamiPF00393. 6PGD. 1 hit.
    PF03446. NAD_binding_2. 1 hit.
    [Graphical view]
    PIRSFiPIRSF000109. 6PGD. 1 hit.
    SUPFAMiSSF48179. SSF48179. 1 hit.
    TIGRFAMsiTIGR00873. gnd. 1 hit.
    PROSITEiPS00461. 6PGD. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P12013-1 [UniParc]FASTAAdd to Basket

    « Hide

    MFNSIGVIGL GVMGSNIALN MANKGENVAV YNYTRDLTDQ LIQKLDGQSL    50
    SPYYELEDFV QSLEKPRKIF LMVTAGKPVD SVIQSLKPLL EEGDVIMDGG 100
    NSHYEDTERR YDELKEKGIG YLGVGISGGE VGALTGPSIM PGGDRDVYEK 150
    AAPILTKIAA QVGDDPCCVY IGPKGAGHFT KMVHNGIEYA DMQLIAEAYT 200
    FLRETLRLPL DEIASIFETW NQGELKSYLI EITAEILRKK DEKTGQPLID 250
    VILDKTGQKG TGKWTSMQAI DNGIPSTIIT ESLFARYLSS LKEERMAAQD 300
    VLAGPEAEEK HLDKDTWIEY VRQALYMGKV CAYAQGFAQY KMSSELYGWN 350
    LPLKDIALIF RGGCIIRADF LNVISEAFSE QPNLANLLIA PYFTDKLHAY 400
    QTGLRKVVCE GISTGISFPC LTTALSYYDG YRTGRSNANL LQAQRDYFGA 450
    HTYERTDMDG VFHTNWSE 468
    Length:468
    Mass (Da):51,983
    Last modified:October 1, 1989 - v1
    Checksum:i56D88BEB8E553856
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    J02584 Genomic DNA. Translation: AAA56927.1.
    AB005554 Genomic DNA. Translation: BAA21576.1.
    AL009126 Genomic DNA. Translation: CAB16045.1.
    D78193 Genomic DNA. Translation: BAA11267.1.
    PIRiD26190.
    RefSeqiNP_391888.1. NC_000964.3.
    WP_003243876.1. NZ_CM000487.1.

    Genome annotation databases

    EnsemblBacteriaiCAB16045; CAB16045; BSU40080.
    GeneIDi937716.
    KEGGibsu:BSU40080.
    PATRICi18980086. VBIBacSub10457_4205.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    J02584 Genomic DNA. Translation: AAA56927.1 .
    AB005554 Genomic DNA. Translation: BAA21576.1 .
    AL009126 Genomic DNA. Translation: CAB16045.1 .
    D78193 Genomic DNA. Translation: BAA11267.1 .
    PIRi D26190.
    RefSeqi NP_391888.1. NC_000964.3.
    WP_003243876.1. NZ_CM000487.1.

    3D structure databases

    ProteinModelPortali P12013.
    SMRi P12013. Positions 1-468.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 224308.BSU40080.

    Proteomic databases

    PaxDbi P12013.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai CAB16045 ; CAB16045 ; BSU40080 .
    GeneIDi 937716.
    KEGGi bsu:BSU40080.
    PATRICi 18980086. VBIBacSub10457_4205.

    Organism-specific databases

    GenoListi BSU40080. [Micado ]

    Phylogenomic databases

    eggNOGi COG0362.
    HOGENOMi HOG000255147.
    KOi K00033.
    OMAi HYEDTER.
    OrthoDBi EOG6MSS4W.
    PhylomeDBi P12013.

    Enzyme and pathway databases

    BioCyci BSUB:BSU40080-MONOMER.

    Family and domain databases

    Gene3Di 1.10.1040.10. 1 hit.
    1.20.5.320. 1 hit.
    3.40.50.720. 1 hit.
    InterProi IPR008927. 6-PGluconate_DH_C-like.
    IPR006114. 6PGDH_C.
    IPR006113. 6PGDH_decarbox.
    IPR006115. 6PGDH_NADP-bd.
    IPR006184. 6PGdom_BS.
    IPR013328. DH_multihelical.
    IPR012284. Fibritin/6PGD_C-extension.
    IPR016040. NAD(P)-bd_dom.
    [Graphical view ]
    Pfami PF00393. 6PGD. 1 hit.
    PF03446. NAD_binding_2. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF000109. 6PGD. 1 hit.
    SUPFAMi SSF48179. SSF48179. 1 hit.
    TIGRFAMsi TIGR00873. gnd. 1 hit.
    PROSITEi PS00461. 6PGD. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Organization and transcription of the gluconate operon, gnt, of Bacillus subtilis."
      Fujita Y., Fujita T., Miwa Y., Nihashi J., Aratani Y.
      J. Biol. Chem. 261:13744-13753(1986) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    2. "Cloning and sequencing of a 36-kb region of the Bacillus subtilis genome between the gnt and iol operons."
      Yoshida K., Seki S., Fujimura M., Miwa Y., Fujita Y.
      DNA Res. 2:61-69(1995) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: 168 / BGSC1A1.
    3. "The complete genome sequence of the Gram-positive bacterium Bacillus subtilis."
      Kunst F., Ogasawara N., Moszer I., Albertini A.M., Alloni G., Azevedo V., Bertero M.G., Bessieres P., Bolotin A., Borchert S., Borriss R., Boursier L., Brans A., Braun M., Brignell S.C., Bron S., Brouillet S., Bruschi C.V.
      , Caldwell B., Capuano V., Carter N.M., Choi S.-K., Codani J.-J., Connerton I.F., Cummings N.J., Daniel R.A., Denizot F., Devine K.M., Duesterhoeft A., Ehrlich S.D., Emmerson P.T., Entian K.-D., Errington J., Fabret C., Ferrari E., Foulger D., Fritz C., Fujita M., Fujita Y., Fuma S., Galizzi A., Galleron N., Ghim S.-Y., Glaser P., Goffeau A., Golightly E.J., Grandi G., Guiseppi G., Guy B.J., Haga K., Haiech J., Harwood C.R., Henaut A., Hilbert H., Holsappel S., Hosono S., Hullo M.-F., Itaya M., Jones L.-M., Joris B., Karamata D., Kasahara Y., Klaerr-Blanchard M., Klein C., Kobayashi Y., Koetter P., Koningstein G., Krogh S., Kumano M., Kurita K., Lapidus A., Lardinois S., Lauber J., Lazarevic V., Lee S.-M., Levine A., Liu H., Masuda S., Mauel C., Medigue C., Medina N., Mellado R.P., Mizuno M., Moestl D., Nakai S., Noback M., Noone D., O'Reilly M., Ogawa K., Ogiwara A., Oudega B., Park S.-H., Parro V., Pohl T.M., Portetelle D., Porwollik S., Prescott A.M., Presecan E., Pujic P., Purnelle B., Rapoport G., Rey M., Reynolds S., Rieger M., Rivolta C., Rocha E., Roche B., Rose M., Sadaie Y., Sato T., Scanlan E., Schleich S., Schroeter R., Scoffone F., Sekiguchi J., Sekowska A., Seror S.J., Serror P., Shin B.-S., Soldo B., Sorokin A., Tacconi E., Takagi T., Takahashi H., Takemaru K., Takeuchi M., Tamakoshi A., Tanaka T., Terpstra P., Tognoni A., Tosato V., Uchiyama S., Vandenbol M., Vannier F., Vassarotti A., Viari A., Wambutt R., Wedler E., Wedler H., Weitzenegger T., Winters P., Wipat A., Yamamoto H., Yamane K., Yasumoto K., Yata K., Yoshida K., Yoshikawa H.-F., Zumstein E., Yoshikawa H., Danchin A.
      Nature 390:249-256(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: 168.
    4. "Sequence analysis of the 36-kb region between gntZ and trnY genes of Bacillus subtilis genome."
      Kasahara Y., Nakai S., Ogasawara N.
      DNA Res. 4:155-159(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 460-468.
      Strain: 168.
    5. "Analysis of the gluconate (gnt) operon of Bacillus subtilis."
      Reizer A., Deutscher J., Saier M.H. Jr., Reizer J.
      Mol. Microbiol. 5:1081-1089(1991) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROBABLE FUNCTION.
    6. "The Bacillus subtilis yqjI gene encodes the NADP+-dependent 6-P-gluconate dehydrogenase in the pentose phosphate pathway."
      Zamboni N., Fischer E., Laudert D., Aymerich S., Hohmann H.P., Sauer U.
      J. Bacteriol. 186:4528-4534(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, CATALYTIC ACTIVITY, DISRUPTION PHENOTYPE.
      Strain: 168.

    Entry informationi

    Entry namei6PGDH_BACSU
    AccessioniPrimary (citable) accession number: P12013
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 1, 1989
    Last sequence update: October 1, 1989
    Last modified: October 1, 2014
    This is version 116 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. Bacillus subtilis
      Bacillus subtilis (strain 168): entries, gene names and cross-references to SubtiList
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3