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Real-time observation of proton-pumping of membrane protein complexes using a novel high-sensitivity IR spectrometer

Research Project

Project/Area Number 23685040
Research Category

Grant-in-Aid for Young Scientists (A)

Allocation TypeSingle-year Grants
Research Field Chemistry related to living body
Research InstitutionInstitute of Physical and Chemical Research (2012-2013)
University of Hyogo (2011)

Principal Investigator

KUBO Minoru  独立行政法人理化学研究所, 放射光科学総合研究センター, 研究員 (90392878)

Project Period (FY) 2011-04-01 – 2014-03-31
Project Status Completed (Fiscal Year 2013)
Budget Amount *help
¥20,150,000 (Direct Cost: ¥15,500,000、Indirect Cost: ¥4,650,000)
Fiscal Year 2013: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Fiscal Year 2012: ¥2,080,000 (Direct Cost: ¥1,600,000、Indirect Cost: ¥480,000)
Fiscal Year 2011: ¥16,120,000 (Direct Cost: ¥12,400,000、Indirect Cost: ¥3,720,000)
Keywords赤外分光法 / 時間分解振動分光法 / ヘムタンパク質 / 膜タンパク質 / チトクロム酸化酵素 / プロトンポンプ / 一酸化窒素還元酵素 / フェムト秒レーザー / 時間分解赤外分光 / 酵素反応 / 光反応
Research Abstract

This project aims to establish time-resolved IR spectroscopic techniques for observing reactions of membrane protein complexes under physiological conditions in real time. High-sensitivity IR spectrometer was constructed using a femtosecond IR laser as the light source. On the other hand, a flow-flash measurement system was developed to control reactions, which are triggered by the photolysis of caged compounds. Micro-channel flow cell was used to obtain a spectrum with minimal sample consumption. The flow-flash system was installed into time-resolved UV-visible absorption spectrometer and tested on NO reductase. We successfully observed the enzymatic reaction of this membrane protein with microsecond time resolution. Flow-flash time-resolved IR spectroscopy is ongoing.

Report

(4 results)
  • 2013 Annual Research Report   Final Research Report ( PDF )
  • 2012 Annual Research Report
  • 2011 Annual Research Report
  • Research Products

    (34 results)

All 2014 2013 2012 2011

All Journal Article (14 results) (of which Peer Reviewed: 14 results,  Open Access: 2 results) Presentation (20 results) (of which Invited: 6 results)

  • [Journal Article] Effective Pumping Proton Collection Facilitated by a Copper Site (CuB) of Bovine Heart Cytochrome c Oxidase, Revealed by a Newly Developed Time-resolved Infrared System2013

    • Author(s)
      Minoru Kubo, Satoru Nakashima, Satoru Yamaguchi, Takashi Ogura, Masao Mochizuki, Jiyoung Kang, Masaru Tateno, Kyoko Shinzawa-Itoh, Koji Kato and Shinya Yoshikawa
    • Journal Title

      J. Biol. Chem.

      Volume: 288 Issue: 42 Pages: 30259-30269

    • DOI

      10.1074/jbc.m113.473983

    • Related Report
      2013 Annual Research Report 2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Redox Properties of Mononuclear Copper(II)-Superoxide Complex2013

    • Author(s)
      Shinobu Itoh
    • Journal Title

      Inorg. Chem.

      Volume: 52 Issue: 18 Pages: 10431-10437

    • DOI

      10.1021/ic401261z

    • Related Report
      2013 Annual Research Report 2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Oxo-sulfido- and oxo-selenido-molybdenum(VI) complexes possessing dithiolene ligand related to the active sites of hydroxylases of molybdoenzymes: Low temperature preparation and characterisation2013

    • Author(s)
      Shinobu Itoh, et al.
    • Journal Title

      Chem. Commun.

      Volume: 49 Issue: 39 Pages: 4358-4360

    • DOI

      10.1039/c2cc35345h

    • Related Report
      2013 Annual Research Report 2013 Final Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] A new series of bis(ene-1,2-dithiolato)tungsten(IV), -(V), -(VI) complexes as reaction centre models of tungsten enzymes: preparation, crystal structures and spectroscopic properties2013

    • Author(s)
      Shinobu Itoh, et al.
    • Journal Title

      Dalton Trans.

      Volume: 42 Issue: 9 Pages: 3059-3070

    • DOI

      10.1039/c2dt32179c

    • Related Report
      2013 Annual Research Report 2013 Final Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Copper(I)-dioxygen reactivity in a sterically demanding tripodal tetradentate tren ligand. Formation and reactivity of a mononuclear copper(II) end-on superoxo complex2012

    • Author(s)
      Kobayashi, Y., Okubo, K., Nomura, T., Kubo, M., Fujieda, N., Sugimoto, H., Fukuzumi, S., Goto, K., Ogura, T., Itoh, S
    • Journal Title

      Eur. J. Inorg. Chem

      Volume: (29) (Selected for Cover Picture) Issue: 29 Pages: 4574-4578

    • DOI

      10.1002/ejic.201290089

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Chromium(IV)-peroxo complex formation and its nitric oxide dioxygenase reactivity2012

    • Author(s)
      Yokoyama, A., Han, J. E., Cho, J., Kubo, M., Ogura, T., Siegler, M. A., Karlin, K. D., Nam, W
    • Journal Title

      J. Am. Chem. Soc

      Volume: Vol. 134 Issue: 37 Pages: 15269-15272

    • DOI

      10.1021/ja307384e

    • Related Report
      2013 Final Research Report 2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] DFT Analysis of Low-frequency Heme Vibrations in Soluble Guanylate Cyclase: Raman Mode Enhancement by Propionate-Protein Interactions2012

    • Author(s)
      M. Kubo
    • Journal Title

      Chemistry Letters

      Volume: 41 Issue: 9 Pages: 860-862

    • DOI

      10.1246/cl.2012.860

    • NAID

      10031030516

    • Related Report
      2013 Final Research Report 2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Site-specific protein dynamics in communication pathway from sensor to signaling domain of oxygen sensor protein, HemAT-Bs : time-resolved ultraviolet resonance Raman study2012

    • Author(s)
      S. El-Mashtoly, M. Kubo, Y. Gu, H. Sawai, S. Nakashima, T. Ogura, S. Aono, T. Kitagawa
    • Journal Title

      J. Biol. Chem

      Volume: 287 Issue: 24 Pages: 19973-19984

    • DOI

      10.1074/jbc.m112.357855

    • Related Report
      2013 Final Research Report 2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Copper(I)-Dioxygen Reactivity in a Sterically Demanding Tripodal Tetradentate tren Ligand. Formation and Reactivity of a Mononuclear Copper(II) End-on Superoxo Complex2012

    • Author(s)
      Shinobu Itoh, et al.
    • Journal Title

      Eur. J. Inorg. Chem.

      Volume: 2012 Issue: 29 Pages: 4574-4578

    • DOI

      10.1002/ejic.201200177

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Chromium(V)-oxo and chromium(III)-superoxo complexes bearing a macrocyclic TMC ligand in hydrogen atom abstraction reactions2011

    • Author(s)
      Cho, J., Woo, J., Han, J. E., Kubo, M., Ogura, T., Nam, W
    • Journal Title

      Chem. Sci

      Volume: Vol. 2 Issue: 10 Pages: 2057-2062

    • DOI

      10.1039/c1sc00386k

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Structural Dynamics of<i>Ec</i>DOS Heme Domain Revealed by Time-Resolved Ultraviolet Resonance Raman Spectroscopy2011

    • Author(s)
      El-Mashtoly, Samir; Kubo, Minoru; Nakashima, Satoru; Shimizu, Toru; Kitagawa, Teizo
    • Journal Title

      J. Phys. Chem. Lett.

      Volume: 2 Issue: 17 Pages: 2212-2217

    • DOI

      10.1021/jz201017y

    • Related Report
      2013 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Spectroscopic identification of reactive porphyrin motions2011

    • Author(s)
      Barabanschikov, A., Demidov, A., Kubo, M., Champion, P.M., Sage, J.T., Zhao, J., Sturhahn, W., Alp, E.E.
    • Journal Title

      J.Chem.Phys.

      Volume: 135 Issue: 1

    • DOI

      10.1063/1.3598473

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Chromium(V)-oxo and chromium(III)-superoxo complexes bearing a macrocyclic TMC ligand in hydrogen atom abstraction reactions2011

    • Author(s)
      Cho, J., Woo, J., Han, J.E., Kubo, M., Ogura, T., Nam, W.
    • Journal Title

      Chem.Sci.

      Volume: 2 Pages: 2057-2062

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Spectroscopic and computational characterization of Cu^<II>-OOR (R=H or Cumyl) complexes bearing a Me_6-tren ligand2011

    • Author(s)
      Choi, Y.J., Cho, K.-B., Kubo, M., Ogura, T., Karlin, K.D., Cho, J., Nam, W.
    • Journal Title

      Dalton Trans.

      Volume: 40 Issue: 10 Pages: 2234-2241

    • DOI

      10.1039/c0dt01036g

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Presentation] X線結晶構造解析と振動分光法の併用によるタンパク質の動的精密構造解析2014

    • Author(s)
      久保稔
    • Organizer
      大阪大学蛋白質研究所セミナー"結晶構造を併用したハイブリッド構造研究の最前線"
    • Place of Presentation
      大阪
    • Year and Date
      2014-02-08
    • Related Report
      2013 Final Research Report
    • Invited
  • [Presentation] フロー・フラッシュ過渡吸収分光法による一酸化窒素還元酵素のNO還元反応機構の解析2014

    • Author(s)
      木村哲就,當舎武彦,城宜嗣,久保稔
    • Organizer
      第14回日本蛋白質科学会年会
    • Place of Presentation
      横浜
    • Related Report
      2013 Annual Research Report
  • [Presentation] X線結晶構造解析と振動分光法の併用によるタンパク質の動的精密構造解析2014

    • Author(s)
      久保稔
    • Organizer
      大阪大学蛋白質研究所セミナー “結晶構造を併用したハイブリッド構造研究の最前線”
    • Place of Presentation
      大阪
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] Development of micro-channel flow-flash method for time-resolved spectroscopic study of enzymatic reactions2013

    • Author(s)
      木村哲就,當舎武彦,城宜嗣,久保稔
    • Organizer
      日本生物物理学会,第51回年会
    • Place of Presentation
      京都
    • Year and Date
      2013-10-28
    • Related Report
      2013 Final Research Report
  • [Presentation] 酵素反応の観測を可能にする振動分光技術の開発と展望2013

    • Author(s)
      久保稔
    • Organizer
      第13回日本蛋白質科学会年会,ワークショップ"蛋白質機能を化学的に理解するために"
    • Place of Presentation
      鳥取
    • Year and Date
      2013-06-12
    • Related Report
      2013 Final Research Report
    • Invited
  • [Presentation] Development of a high-sensitivity time-resolved infrared spectrometer and its application to cytochrome c oxidase in aqueous solution2013

    • Author(s)
      Kubo, M., Nakashima, S., Yamaguchi, S., Ogura, T., Mochizuki, M., Kang, J., Tateno, M., Shinzawa-Itoh, K., Kato, K., Yoshikawa, S
    • Organizer
      International Conference on Structural Genomics-Structural Life Science (ICSG-2013-SLS)
    • Place of Presentation
      Sapporo (Japan)
    • Related Report
      2013 Final Research Report
  • [Presentation] Real time observation of water-channel closure controlled by Cu_B in bovine cytochrome c oxidase using a novel high-sensitivity infrared system2013

    • Author(s)
      Kubo, M., Nakashima, S., Yamaguchi, S., Ogura, T., Mochizuki, M., Kang, J., Tateno, M., Shinzawa-Itoh, K., Kato, K., Yoshikawa, S
    • Organizer
      16th International Conference on Biological Inorganic Chemistry (ICBIC-16)
    • Place of Presentation
      Grenoble (France)
    • Related Report
      2013 Final Research Report
  • [Presentation] Development of micro-channel flow-flash method for time-resolved spectroscopic study of enzymatic reactions2013

    • Author(s)
      木村哲就,當舎武彦,城宜嗣,久保稔
    • Organizer
      日本生物物理学会 第51回年会
    • Place of Presentation
      京都
    • Related Report
      2013 Annual Research Report
  • [Presentation] Development of a high-sensitivity time-resolved infrared spectrometer and its application to cytochrome c oxidase in aqueous solution2013

    • Author(s)
      Kubo, M., Nakashima, S., Yamaguchi, S., Ogura, T., Mochizuki, M., Kang, J., Tateno, M., Shinzawa-Itoh, K., Kato, K., Yoshikawa, S.
    • Organizer
      International Conference on Structural Genomics-Structural Life Science (ICSG-2013-SLS)
    • Place of Presentation
      札幌
    • Related Report
      2013 Annual Research Report
  • [Presentation] Real time observation of water-channel closure controlled by CuB in bovine cytochrome c oxidase using a novel high-sensitivity infrared system2013

    • Author(s)
      Kubo, M., Nakashima, S., Yamaguchi, S., Ogura, T., Mochizuki, M., Kang, J., Tateno, M., Shinzawa-Itoh, K., Kato, K., Yoshikawa, S.
    • Organizer
      16th International Conference on Biological Inorganic Chemistry (ICBIC-16)
    • Place of Presentation
      Grenoble (France)
    • Related Report
      2013 Annual Research Report
  • [Presentation] 酵素反応の観測を可能にする振動分光技術の開発と展望2013

    • Author(s)
      久保稔
    • Organizer
      第13回日本蛋白質科学会年会,ワークショップ “蛋白質機能を化学的に理解するために”
    • Place of Presentation
      鳥取
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] Time-resolved IR analyses of proteins using a novel pulse flow system synchronized with pump/probe lasers2012

    • Author(s)
      久保稔, 中島聡, 望月正雄, 伊藤-新澤恭子, 吉川信也, 小倉尚志
    • Organizer
      日本生物物理学会,第50回年会
    • Place of Presentation
      名古屋
    • Year and Date
      2012-09-24
    • Related Report
      2013 Final Research Report
  • [Presentation] Time-resolved IR analyses of proteins using a novel pulse flow system synchronized with pump/probe lasers.2012

    • Author(s)
      久保稔, 中島聡, 望月正雄, 伊藤-新澤 恭子, 吉川信也, 小倉尚志
    • Organizer
      日本生物物理学会,第50回年会
    • Place of Presentation
      名古屋
    • Related Report
      2012 Annual Research Report
  • [Presentation] フェムト秒レーザーを用いた高感度時間分解赤外分光装置の開発と蛋白質水溶液への応用2011

    • Author(s)
      久保稔, 山口悟, 望月正雄, 伊藤-新澤恭子, 吉川信也, 小倉尚志, 中島聡
    • Organizer
      平成23年度日本分光学会年次講演会
    • Place of Presentation
      横浜 (若手講演賞受賞)
    • Year and Date
      2011-12-02
    • Related Report
      2013 Final Research Report
  • [Presentation] フェムト秒レーザーを用いた高感度時間分解赤外分光装置の開発と蛋白質水溶液への応用2011

    • Author(s)
      久保稔, 山口悟, 望月正雄, 伊藤-新澤恭子, 吉川信也, 小倉尚志, 中島聡
    • Organizer
      平成23年度日本分光学会年次講演会
    • Place of Presentation
      理化学研究所横浜研究所交流棟ホール(神奈川県)(若手講演賞受賞)
    • Year and Date
      2011-12-02
    • Related Report
      2011 Annual Research Report
  • [Presentation] タンパク質の低振動コヒーレンス─Revisited─2011

    • Author(s)
      久保稔
    • Organizer
      大阪大学蛋白質研究所セミナー"タンパク質科学の未来を語る:実験・理論研究者の対話"
    • Place of Presentation
      大阪
    • Year and Date
      2011-11-21
    • Related Report
      2013 Final Research Report
    • Invited
  • [Presentation] 水溶液中のタンパク質の高感度時間分解赤外分光測定2011

    • Author(s)
      久保稔,山口悟, 望月正雄, 伊藤-新澤恭子, 吉川信也, 小倉尚志, 中島聡
    • Organizer
      第5回分子科学討論会
    • Place of Presentation
      札幌
    • Year and Date
      2011-09-20
    • Related Report
      2013 Final Research Report
  • [Presentation] 水溶液中の蛋白質の高感度時間分解赤外分光測定2011

    • Author(s)
      久保稔, 山口悟, 望月正雄, 吉川信也, 小倉尚志, 中島聡
    • Organizer
      第5回分子科学討論会
    • Place of Presentation
      札幌コンベンションセンター(北海道)
    • Year and Date
      2011-09-20
    • Related Report
      2011 Annual Research Report
  • [Presentation] High-sensitivity time-resolved infrared analyses of proteins, functioning in aqueous solution2011

    • Author(s)
      久保稔
    • Organizer
      日本生物物理学会,第49回年会シンポジウム"Sail on Quantum Structural Biology ! "
    • Place of Presentation
      姫路
    • Year and Date
      2011-09-17
    • Related Report
      2013 Final Research Report
    • Invited
  • [Presentation] 水溶液中の蛋白質の高感度時間分解赤外分光解析2011

    • Author(s)
      久保稔
    • Organizer
      日本生物物学会第49回年会
    • Place of Presentation
      兵庫県立大学姫路書写キャンパス(兵庫県)(招待講演)
    • Year and Date
      2011-09-17
    • Related Report
      2011 Annual Research Report

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Published: 2011-04-06   Modified: 2019-07-29  

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