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Anaerobic carbon dioxide fixation by microorganisms

Research Project

Project/Area Number 11450314
Research Category

Grant-in-Aid for Scientific Research (B).

Allocation TypeSingle-year Grants
Section一般
Research Field 生物・生体工学
Research InstitutionKYOTO UNIVERSITY

Principal Investigator

ATOMI Haruyuki  Grad.Sch.Engineering, KYOTO UNIVERSITY Assoc. Prof., 工学研究科, 助教授 (90243047)

Co-Investigator(Kenkyū-buntansha) FUKUI Toshiaki  Grad.Sch.Engineering, KYOTO UNIVERSITY Assis. Prof., 工学研究科, 助手 (80271542)
Project Period (FY) 1999 – 2000
Project Status Completed (Fiscal Year 2000)
Budget Amount *help
¥12,900,000 (Direct Cost: ¥12,900,000)
Fiscal Year 2000: ¥6,100,000 (Direct Cost: ¥6,100,000)
Fiscal Year 1999: ¥6,800,000 (Direct Cost: ¥6,800,000)
Keywordscarbon dioxide fixation / Rubisco / ATP-citrate lyase / biotin / carboxylase / 超好熱菌 / 始原菌 / Thermococcus / archaea / 嫌気的炭酸固定 / リブロースビスリン酸カルボキシラーゼ / RuBisCO
Research Abstract

ATP-citrate lyase, one of the key enzymes of the reductive tricarboxylic acid cycle, was partially purified from Chlorobium limicola strain M1 and the N-terminal sequence of a 65-kDa protein was found to show similarity toward eukaryotic ATP-citrate lyase. We isolated a DNA fragment containing two adjacent open reading frames, aclB (1197 bp) and aclA (1827 bp), whose products showed significant similarity to the N- and C-terminal regions of the human enzyme, respectively. Heterologous expression of these genes in Escherichia coli showed that both gene products were essential for ATP-citrate lyase activity. The recombinant enzyme was purified from the cell-free extract of E.coli harboring aclBA for further characterization. The molecular mass of the recombinant enzyme was determined to be approximately 532-557 kDa by gel-filtration. The enzyme catalyzed the cleavage of citrate in an ATP-, CoA- and Mg2+-dependent manner, where ATP and Mg2+ could be replaced by dATP and Mn2+, respectively … More . ADP and oxaloacetate inhibited the reaction. These properties suggested that ATP-citrate lyase from C.limicola controlled the cycle flux depending on intracellular energy conditions. We previously noticed the presence of a highly active, Rubisco in a hyperthermophilic archaeon, Pyrococcus kodakaraensis KOD1. Phylogenetic analysis of Rubiscos indicated that archaeal Rubiscos, including Pk -Rubisco, were distinct from previously reported type I and type II enzymes in terms of primary structure. In order to investigate the existence of small subunits in native Pk-Rubisco, immunoprecipitation and native-PAGE experiments were performed. No specific protein other than the expected large subunit of Pk -Rubisco was detected when the cell-free extracts of KOD1 were immunoprecipitated with polyclonal antibodies against the recombinant enzyme. Furthermore, native and recombinant Pk-Rubiscos exhibited identical mobilities on native-PAGE.These results indicated that native Pk-Rubisco consisted solely of large subunits. Electron micrographs of purified recombinant Pk-Rubisco displayed pentagonal ring-like assemblies of the molecules. Crystals of Pk -Rubisco obtained from ammonium sulfate solutions diffracted X-rays beyond 2.8 A resolution. The self-rotation function of the diffraction data showed the existence of 5-fold and 2-fold axes, which are located perpendicularly to each other. These results, along with the molecular mass of Pk -Rubisco estimated from gel filtration, strongly suggest that Pk-Rubisco is a decamer composed only of large subunits, with pentagonal ring-like structure. This is the first report of a decameric assembly of Rubisco, which is thought to belong to neither type I nor type II Rubiscos. Less

Report

(3 results)
  • 2000 Annual Research Report   Final Research Report Summary
  • 1999 Annual Research Report
  • Research Products

    (18 results)

All Other

All Publications (18 results)

  • [Publications] Haruyuki Atomi: "Presence of a structurally novel type Rubisco in the hyperthermophilic archaeon, Pyrococcus kodakaraensis KOD1."Journal of Biological Chemistry. 274(8). 5078-5082 (1999)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2000 Final Research Report Summary
  • [Publications] Haruyuki Atomi: "Rubisco from the hyperthermophilic archaeon Pyrococcus kodakaraensis KOD1 is composed solely of large subunits and forms a pentagonal structure."Journal of Molecular Biology. 293(1). 57-66 (1999)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2000 Final Research Report Summary
  • [Publications] Haruyuki Atomi: "Rubisco from the hyperthermophilic archaeon, Thermococcus kodakaraensis."Methods in Enzymol.. 331. 353-365 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2000 Final Research Report Summary
  • [Publications] Haruyuki Atomi: "ATP-citrate lyase from the green sulfur bacterium Chlorobium limicola is a heteromeric enzyme composed of two distinct gene products"Eur.J.Biochem.. 268(6). 1670-1678 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2000 Final Research Report Summary
  • [Publications] S.Ezaki, N.Maeda, T.Kishimoto, H.Atomi and T.Imanaka: "Presence of a structurally novel type ribulose bisphosphate carboxylase/oxygenase in the hyperthermophilic archaeon, Pyrococcus kodakaraensis KOD1."J.Biol.Chem.. 274(8). 5078-5082 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2000 Final Research Report Summary
  • [Publications] N.Maeda, K.Kitano, T.Fukui, S.Ezaki, H.Atomi, K.Miki and T.Imanaka: "Ribulose bisphosphate carboxylase/oxygenase from the hyperthermophilic archaeon Pyrococcus kodakaraensis KOD1 is composed solely of large subunits and forms a pentagonal structure."J.Mol.Biol.. 293(1). 57-66 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2000 Final Research Report Summary
  • [Publications] T.Kanao, T.Fukui, H.Atomi and T.Imanaka: "ATP-citrate lyase from the green sulfur bacterium Chlorobium limicola is a heteromeric enzyme composed of two distinct gene products"Eur.J.Biochem.. 268(6). 1670-1678 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2000 Final Research Report Summary
  • [Publications] H.Atomi, S.Ezaki and T.Imanaka: "Rubisco from the hyperthermophilic archaeon, Thermococcus kodakaraensis KOD1."Methods in Enzymol.. 331. 353-365 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2000 Final Research Report Summary
  • [Publications] Haruyuki Atomi: "Presence of a structurally novel type Rubisco in the hyperthermophilic archaeon, Pyrococcus kodakaraensis KOD1."Journal of Biological Chemistry. 274(8). 5078-5082 (1999)

    • Related Report
      2000 Annual Research Report
  • [Publications] Haruyuki Atomi: "Rubisco from the hyperthermophilic archaeon Pyrococcus kodakaraensis KOD1 is composed solely of large subunits and forms a pentagonal structure."Journal of Molecular Biology. 293(1). 57-66 (1999)

    • Related Report
      2000 Annual Research Report
  • [Publications] Haruyuki Atomi: "Rubisco from the hyperthermophilic archaeon, Thermococcus kodakaraensis."Methods in Enzymol.. 331. 353-365 (2001)

    • Related Report
      2000 Annual Research Report
  • [Publications] Haruyuki Atomi: "ATP-citrate lyase from the green sulfur bacterium Chlorobium limicola is a heteromeric enzyme composed of two distinct gene products"Eur.J.Biochem.. 268(6). 1670-1678 (2001)

    • Related Report
      2000 Annual Research Report
  • [Publications] S.Ezaki et al.: "Presence of a structurally novel type ribulose-bisphosphate carboxylase/oxygenase in the hyperthermophilic archaeon, Pyrococcus kodakaraensis KOD1"J. Biol. Chem.. 274. 5078-5082 (1999)

    • Related Report
      1999 Annual Research Report
  • [Publications] N.Rashid et al.: "Isolation and characterization of phychrotrophs from subterranean environments"J. Biosci. Bioeng.. 87. 746-751 (1999)

    • Related Report
      1999 Annual Research Report
  • [Publications] S.Ezaki et al.: "Gene analysis and enzymatic properties of thermostable β-glycosidase from Pyrococcus kodakaraensis KOD1"J. Biosci. Bioeng.. 88. 130-135 (1999)

    • Related Report
      1999 Annual Research Report
  • [Publications] S.Satofuka et al.: "Rapid method for detection and detoxification of heavy metal ions in water environments using phytochelatin"J. Biosci. Bioeng.. 88. 287-291 (1999)

    • Related Report
      1999 Annual Research Report
  • [Publications] N.Maeda et al.: "Ribulose bisphosphate carboxylase/oxygenase from the hyperthermophilic archaeon Pyrococcus kadakaraensis KOD1 is composed solely of large subunits and forms a pentagonal structure"J. Mol. Biol.. 293. 57-66 (1999)

    • Related Report
      1999 Annual Research Report
  • [Publications] T.Tanaka et al.: "A unique chitinase with dual active sites and triple substrate binding sites from hyperthermophilic archaeon Pyrococcus kodakaraensis KOD1"Appl. Environ. Microbiol.. 65. 5338-5344 (1999)

    • Related Report
      1999 Annual Research Report

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Published: 1999-04-01   Modified: 2016-04-21  

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