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Elucidation of reaction mechanism of hydrogenase by neutron crystallography

Research Project

Project/Area Number 16K07283
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Structural biochemistry
Research InstitutionNational Institutes for Quantum and Radiological Science and Technology

Principal Investigator

Tamada Taro  国立研究開発法人量子科学技術研究開発機構, 量子生命科学領域, グループリーダー(定常) (50391248)

Co-Investigator(Kenkyū-buntansha) 栗原 和男  国立研究開発法人量子科学技術研究開発機構, 量子生命科学領域, 上席研究員(定常) (50354890)
Project Period (FY) 2016-04-01 – 2020-03-31
Project Status Completed (Fiscal Year 2019)
Budget Amount *help
¥4,810,000 (Direct Cost: ¥3,700,000、Indirect Cost: ¥1,110,000)
Fiscal Year 2018: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Fiscal Year 2017: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Fiscal Year 2016: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Keywordsタンパク質 / 立体構造 / X線・中性子 / 水素 / X線・中性子 / 蛋白質
Outline of Final Research Achievements

Hydrogenases catalyze the reversible oxidation of molecular hydrogen and play an essential role in energy metabolism in many microorganisms. Furthermore, hydrogenases are interesting not only for basic research but also for clean energy applications since hydrogen is a sustainable and environmentally friendly energy source. [NiFe] hydrogenase contains several metal centers, including the bimetallic Ni-Fe active site, iron-sulfur clusters, and a Mg2+ ion. We determined new conformation of Ni-A type in the oxidized form of hydrogenase from Desulfovibrio vulgaris Miyazaki F by X-ray crystallography considering anomalous dispersion. Neutron structural analysis of the oxidized form was almost completed at 2.0 Å resolution. In addition, we established the freezing method of large crystals of hydrogenase under anaerobic conditions by confirming the uniformity of crystal mosaicness. Neutron structural analyses of the reduced form (active form) are in progress.

Academic Significance and Societal Importance of the Research Achievements

ヒドロゲナーゼは水素の合成・分解を両方向に常温・常圧で触媒する特長を有している。水素原子の直接観察に長けた中性子を軸にした構造解析によるヒドロゲナーゼの反応メカニズムの全原子レベルでの全容解明を目指して研究を実施した。Desulfovibrio vulgaris Miyazaki F由来ヒドロゲナーゼ酸化型の中性子結晶構造解析をほぼ完了し、還元型についても実施の道筋をつけることが出来た。精緻な構造情報に基づいたヒドロゲナーゼ模倣化合物や高機能ヒドロゲナーゼの作成を通じて、クリーンエネルギー実現、さらには温室効果ガス削減による環境問題解決が期待される。

Report

(5 results)
  • 2019 Annual Research Report   Final Research Report ( PDF )
  • 2018 Research-status Report
  • 2017 Research-status Report
  • 2016 Research-status Report
  • Research Products

    (8 results)

All 2019 2018 2017

All Presentation (8 results) (of which Int'l Joint Research: 5 results,  Invited: 4 results)

  • [Presentation] Desulfovibrio vulgaris Miyazaki F株由来[NiFe]-ヒドロゲナーゼの中性子回折実験2019

    • Author(s)
      玉田 太郎、廣本 武史、西川 幸志、井上 誠也、平野 優、樋口 芳樹
    • Organizer
      第19回日本蛋白質科学会年会・第71回日本細胞生物学大会 合同年次大会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Neutron diffraction experiments on [NiFe]-hydrogenase crystallized under H2 atmosphere2019

    • Author(s)
      Hiromoto T, Nishikawa K, Matsuura H, Hirano Y, Kusaka K, Cuneo M, Tamada T, Higuchi Y
    • Organizer
      International Symposium on Diffraction Structure Biology 2019
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Desulfovibrio vulgaris Miyazaki F株由来[NiFe]-ヒドロゲナーゼの中性子回折実験2019

    • Author(s)
      玉田 太郎、廣本 武史、西川 幸志、井上 誠也、平野 優、樋口 芳樹
    • Organizer
      日本結晶学会令和元年(2019)度年会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Structural biology relating to electron transfer2019

    • Author(s)
      Tamada T and Hirano Y
    • Organizer
      3rd QST International Symposium
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Neutron diffraction studies of [NiFe]-hydrogenase from Desulfovibrio vulgaris Miyazaki F2019

    • Author(s)
      Tamada T, Hiromoto T, Nishikawa K, Inoue S, Hirano Y, Higuchi Y.
    • Organizer
      12th International Hydrogenase Conference
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research
  • [Presentation] 中性子とX線を相補的に用いたタンパク質の構造解析2018

    • Author(s)
      玉田太郎
    • Organizer
      2017年度第2回水和ナノ構造研究会
    • Related Report
      2017 Research-status Report
    • Invited
  • [Presentation] Neutron Protein Crystallography in Japan2017

    • Author(s)
      Tamada, T.
    • Organizer
      Neutron Biology for Next Generation
    • Place of Presentation
      Tokai, Japan
    • Year and Date
      2017-03-22
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] Neutron Protein Crystallography at J-PARC/MLF2017

    • Author(s)
      玉田太郎
    • Organizer
      ミニシンポジウムタンパク質ダイナミクス研究の最前線
    • Related Report
      2017 Research-status Report
    • Int'l Joint Research / Invited

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Published: 2016-04-21   Modified: 2021-02-19  

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