Structural basis of energy transduction mechanism in the respiratory terminal enzymes.

• Project/Area Number: 15K07029
• Research Category: Grant-in-Aid for Scientific Research (C)
• Allocation Type: Multi-year Fund
• Section: 一般
• Research Field: Biophysics
• Research Institution: University of Hyogo
• Principal Investigator: Muramoto Kazumasa 兵庫県立大学, 生命理学研究科, 准教授 (50305679)
• Project Period (FY): 2015-04-01 – 2018-03-31
• Project Status: Completed (Fiscal Year 2017)
• Budget Amount: ¥4,940,000 (Direct Cost: ¥3,800,000、Indirect Cost: ¥1,140,000); Fiscal Year 2017: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000); Fiscal Year 2016: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000); Fiscal Year 2015: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
• Keywords: 生物物理 / ナノバイオ / 蛋白質 / 酵素 / 呼吸鎖 / 生体エネルギー変換 / X線結晶構造解析 / 酵素反応速度論的解析

Outline of Final Research Achievements

Respiratory chains in mitochondrial and bacterial membrane transfer hydrogen ions (protons) by using energy released from the redox reaction (electron transfer), and efficiently generates energy available for the life. To understand the energy transduction mechanism, I studied molecular structure and function of the respiratory terminal enzymes. The results showed that structural property of the catalytic site and the proton transfer pathway, and functional property of the electron transfer between the enzyme and its electron donor.

Research Products

• [Int'l Joint Research] Stockholm University(Sweden)
• [Int'l Joint Research] University of Liverpool(United Kingdom)
• [Journal Article] Characterization of the Quinol-dependent Nitric Oxide Reductase from the Pathogen Neisseria meningitidis, an Electrogenic Enzyme (2018)
  • Author(s): N. Gonska, D. R. Young, R. Yuki, T. Okamoto, T. Hisano, S. V. Antonyuk, S. S. Hasnain, K. Muramoto, Y. Shiro, T. Tosha, P. Adelroth
  • Journal Title: Sci. Rep. Volume: 8: 3637 Issue: 1 Pages: 3637-3637
  • DOI: 10.1038/s41598-018-21804-0
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] The Mg2+-containing Water Cluster of Mammalian Cytochrome c Oxidase Collects Four Pumping Proton Equivalents in Each Catalytic Cycle (2016)
  • Author(s): Yano N, Muramoto K, Shimada A, Takemura S, Baba J, Fujisawa H, Mochizuki M, Shinzawa-Itoh K, Yamashita E, Tsukihara T, Yoshikawa S.
  • Journal Title: J. Biol. Chem. Volume: 291 Issue: 46 Pages: 23882-23894
  • DOI: 10.1074/jbc.m115.711770
  • Peer Reviewed / Acknowledgement Compliant
• [Journal Article] X-ray structure of cyanide-bound bovine heart cytochrome c oxidase in the fully oxidized state at 2.0 angstrom resolution. (2015)
  • Author(s): Yano N, Muramoto K, Mochizuki M, Shinzawa-Itoh K, Yamashita E, Yoshikawa S, Tsukihara
  • Journal Title: Acta Cryst. F Volume: 71 Issue: 6 Pages: 726-730
  • DOI: 10.1107/s2053230x15007025
  • Peer Reviewed
• [Presentation] 髄膜炎菌由来一酸化窒素還元酵素の結晶化と速度論的解析 (2017)
  • Author(s): 岡本拓也、Arif Jamali、村本和優、當舎武彦、城宜嗣
  • Organizer: 日本生体エネルギー研究会第42回討論会
• [Presentation] Crystallization of quinol-dependent Nitric oxide reductase from Neisseria Meningitis. (2017)
  • Author(s): Arif M. M. Jamali, Kazumasa Muramoto,Takehiko Tosha ,Yoshitsugu Shiro
  • Organizer: University of Hyogo Leading Program International Symposium
  • Int'l Joint Research
• [Presentation] pKa analysis of the proton transfer pathway in respiratory A-type heme-copper oxygen reductase. (2017)
  • Author(s): 村本和優
  • Organizer: 日本生物物理学会第55回年会
• [Presentation] 緑膿菌一酸化窒素還元酵素によるシトクロムc551およびアズリン酸化反応の速度論的解析 (2016)
  • Author(s): 村本和優、大畠海人、當舎武彦、城宜嗣
  • Organizer: 日本生体エネルギー研究会第42回討論会
  • Place of Presentation: 名古屋工業大学（名古屋市）
  • Year and Date: 2016-12-19
• [Presentation] 髄膜炎菌由来一酸化窒素還元酵の活性測定と結晶化 (2016)
  • Author(s): 結城力、岡本拓也、David Young、村本和優、當舎武彦、城宜嗣
  • Organizer: 日本生体エネルギー研究会第42回討論会
  • Place of Presentation: 名古屋工業大学（名古屋市）
  • Year and Date: 2016-12-19
• [Presentation] Structural analysis of the proton transfer pathway in respiratory heme-copper oxygen reductase superfamily. (2016)
  • Author(s): 村本和優
  • Organizer: 日本生物物理学会第54回年会
  • Place of Presentation: つくば国際会議場（つくば市）
  • Year and Date: 2016-11-25
• [Presentation] Structural and functional characterization of nanodisc-reconstituted cytochrome cbb3 oxidase from Vibrio cholerae. (2016)
  • Author(s): Inoue M, Shibata A, Imai M, Uchida T, Muramoto K, Shiro Y, Yoshikawa S, Ishimori K.
  • Organizer: 日本生物物理学会第54回年会
  • Place of Presentation: つくば国際会議場（つくば市）
  • Year and Date: 2016-11-25
• [Presentation] High-resolution crystal structure of cytochrome c oxidase reveals the mechanism of highly efficient proton pumping. (2016)
  • Author(s): Shimada A, Yano N, Muramoto K, Yamashita E, Shinzawa-Itoh K, Tsukihara T, Yoshikawa S.
  • Organizer: 日本生物物理学会第54回年会
  • Place of Presentation: つくば国際会議場（つくば市）
  • Year and Date: 2016-11-25
• [Presentation] Detailed crystal structural studies of bovine cytochrome oxidase to elucidate the coupling mechanism of dioxygen reduction and proton pump. (2016)
  • Author(s): 月原冨武、島田敦広、矢野直峰、村本和優、新澤・伊藤恭子、山下栄樹、吉川信也
  • Organizer: 本生物物理学会第54回年会
  • Place of Presentation: つくば国際会議場（つくば市）
  • Year and Date: 2016-11-25
• [Presentation] The Mg2+-containing water cluster of mammalian cytochrome c oxidase collects four pumping proton equivalents in each catalytic cycle. (2016)
  • Author(s): Yoshikawa S, Yano N, Muramoto K, Shimada A, Baba J, Mochizuki M, Shinzawa-Itoh K, Yamashita E, Tsukihara T.
  • Organizer: The 19th European Bioenergetics Conference
  • Place of Presentation: Riva del Garda (Italy)
  • Year and Date: 2016-07-02
  • Int'l Joint Research
• [Presentation] 髄膜炎菌由来一酸化窒素還元酵素の精製と結晶化 (2016)
  • Author(s): 結城力、岡本拓也、David Young、村本和優、當舎武彦、城宜嗣
  • Organizer: 第16回日本蛋白質科学会年会
  • Place of Presentation: 福岡国際会議場（福岡市）
  • Year and Date: 2016-06-07
• [Presentation] チトクロム酸化酵素の様々な反応中間体及び反応中間体類似物の構造から提唱されるプロトンポンプ機構 (2016)
  • Author(s): 島田敦広、馬場淳平、山下栄樹、村本和優、伊藤-新澤恭子、月原冨武、吉川信也
  • Organizer: 第16回日本蛋白質科学会年会
  • Place of Presentation: 福岡国際会議場（福岡市）
  • Year and Date: 2016-06-07
• [Presentation] 呼吸鎖電子伝達系プロトンポンプ性酸素還元酵素の電子伝達活性 (2015)
  • Author(s): 村本和優
  • Organizer: 日本生体エネルギー研究会第41回討論会
  • Place of Presentation: 東京大学 文京区
  • Year and Date: 2015-12-21
• [Presentation] Co-crystallization and kinetic analysis of nitric oxide reductase and electron transfer proteins from Pseudomonas aeruginosa. (2015)
  • Author(s): Oobatake K, Muramoto K, Tosha T, Shiro Y
  • Organizer: 第3回ピコバイオロジー研究所国際シンポジウム
  • Place of Presentation: 兵庫県立先端科学技術支援センター 赤穂郡上郡町
  • Year and Date: 2015-12-08
  • Int'l Joint Research
• [Presentation] Purification and crystallization of quinol-dependent nitric oxide reductase from Neisseria meningitides. (2015)
  • Author(s): Yuki R, Muramoto K, Tosha T, Shiro Y
  • Organizer: 第3回ピコバイオロジー研究所国際シンポジウム
  • Place of Presentation: 兵庫県立先端科学技術支援センター 赤穂郡上郡町
  • Year and Date: 2015-12-08
  • Int'l Joint Research
• [Presentation] Structural analysis of respiratory O2 reductase in the reaction intermediate state. (2015)
  • Author(s): 村本和優
  • Organizer: 日本生物物理学会第53回年会
  • Place of Presentation: 金沢大学 金沢市
  • Year and Date: 2015-09-13
• [Presentation] 緑膿菌由来一酸化窒素還元酵素と電子供与タンパク質の精製及び共結晶化 (2015)
  • Author(s): 大畠海人、村本和優、當舎武彦、城宜嗣
  • Organizer: 第15回日本蛋白質科学会年会
  • Place of Presentation: あわぎんホール 徳島市
  • Year and Date: 2015-06-24
• [Presentation] 高分解能X 線結晶構造解析によるチトクロム酸化酵素の酸素還元・プロトンポンプ機構の解明 (2015)
  • Author(s): 月原冨武、島田敦広、島田悟、武村秀平、馬場淳平、村本和優、山下栄樹、伊藤・新澤恭子、吉川信也
  • Organizer: 第15回日本蛋白質科学会年会
  • Place of Presentation: あわぎんホール 徳島市
  • Year and Date: 2015-06-24
• [Presentation] チトクロム酸化酵素内のMgを含む水クラスターが酸素取り込み前に4等量のプロトンを蓄積することで、高効率プロトンポンプ反応を可能にする (2015)
  • Author(s): 島田敦広、矢野直峰、武村秀平、村本和優、山下栄樹、伊藤・新澤恭子、前田友子、月原冨武、吉川信也
  • Organizer: 第15回日本蛋白質科学会年会
  • Place of Presentation: あわぎんホール 徳島市
  • Year and Date: 2015-06-24
• [Presentation] Purification and co-crystallization of nitric oxide reductase and electron transfer proteins from Pseudomonas aeruginosa. (2015)
  • Author(s): Oobatake K, Muramoto K, Tosya T, Shiro Y
  • Organizer: RIKEN Symposium “Metals in Biology” in Wako
  • Place of Presentation: 理研和光キャンパス 和光市
  • Year and Date: 2015-06-16