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Development of time-resolved methods for detections of energy and structural fluctuations, and revealing relationship between fluctuation and reaction mechanism

Planned Research

Project AreaMolecular Science of Fluctuations toward Biological Functions
Project/Area Number 20107003
Research Category

Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)

Allocation TypeSingle-year Grants
Review Section Science and Engineering
Research InstitutionKyoto University

Principal Investigator

TERAZIMA Masahide  京都大学, 理学(系)研究科(研究院), 教授 (00188674)

Project Period (FY) 2008 – 2012
Project Status Completed (Fiscal Year 2013)
Budget Amount *help
¥179,270,000 (Direct Cost: ¥137,900,000、Indirect Cost: ¥41,370,000)
Fiscal Year 2012: ¥34,710,000 (Direct Cost: ¥26,700,000、Indirect Cost: ¥8,010,000)
Fiscal Year 2011: ¥36,790,000 (Direct Cost: ¥28,300,000、Indirect Cost: ¥8,490,000)
Fiscal Year 2010: ¥36,660,000 (Direct Cost: ¥28,200,000、Indirect Cost: ¥8,460,000)
Fiscal Year 2009: ¥41,470,000 (Direct Cost: ¥31,900,000、Indirect Cost: ¥9,570,000)
Fiscal Year 2008: ¥29,640,000 (Direct Cost: ¥22,800,000、Indirect Cost: ¥6,840,000)
Keywords揺らぎ / 生体分子 / 反応 / 機能 / タンパク質 / 時間分解 / 拡散 / 熱力学 / ダイナミクス / 分子科学
Research Abstract

Relationship between fluctuation and biological function has been elucidated by the time-resolved transient grating method, which has been developed in our group. By using this technique, we successfully discovered that the flexible loop region of a blue light sensor FKF1 is important for the function. The volume compressibilities of reaction intermediates of PixD were measured and demonstrated that the fluctuation is indeed enhanced during the reaction. Time-resolve heat capacities and thermal expansion coefficients were also measured for reaction intermediates which were directly related with the function. A new analytical method of a single molecular detection has been developed for obtaining high time resolved information of the fluctuation.

Report

(8 results)
  • 2013 Final Research Report ( PDF )
  • 2012 Annual Research Report   Final Research Report
  • 2011 Annual Research Report
  • 2010 Annual Research Report   Self-evaluation Report ( PDF )
  • 2009 Annual Research Report
  • 2008 Annual Research Report
  • Research Products

    (62 results)

All 2013 2012 2011 2010 2009 2008 Other

All Journal Article (26 results) (of which Peer Reviewed: 26 results) Presentation (19 results) (of which Invited: 2 results) Book (10 results) Remarks (7 results)

  • [Journal Article] High hydrostatic pressure induces CCW to CW reversals of the Escherichia coli flagellar motor2013

    • Author(s)
      M.Nishiyama, Y.Sowa, Y.Kimura, M. Homma, A. Ishijima, M. Terazima
    • Journal Title

      J.Bacterio.

      Volume: 195 Issue: 8 Pages: 1809-1814

    • DOI

      10.1128/jb.02139-12

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Anomalous diffusion of TePixD and identification of the photoreaction product2013

    • Author(s)
      K.Kuroi, K.Tanaka, K.Okajima, M. Ikeuchi, S. Tokutomi, M.Terazim
    • Journal Title

      Photochem.Photobiol.Sci.

      Volume: 12 Issue: 7 Pages: 1180-1186

    • DOI

      10.1039/c3pp25434h

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Photochemistry of Arabidopsis phototropin 1 LOV1: transient tetramerization2013

    • Author(s)
      Y. Nakasone, K. Zikihara, S. Tokutomi,M. Terazima
    • Journal Title

      Photochem.Photobiol.Sci.

      Volume: 12 Issue: 7 Pages: 1171-1179

    • DOI

      10.1039/c3pp50047k

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Anomalous ground-state proton transfer of 4’-N,N-diethylamino-3-hydroxyflavone in ionic liquids of imidazolium-based cations with tetrafluoroborate2013

    • Author(s)
      K. Suda, M. Terazima, H. Sato, Y. Kimura
    • Journal Title

      Chem. Comm.

      Volume: 49 Issue: 38 Pages: 3976-3978

    • DOI

      10.1039/c3cc40943k

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Dynamics of the Amino-Terminal and Carboxyl-Terminal Helices of Arabidopsis Phototropin 1 LOV2 Studied by the Transient Grating2013

    • Author(s)
      K.Takeda, Y.Nakasone, K.Zikihara, S.Tokutomi, M. Terazima
    • Journal Title

      J.Phys.Chem.B,

      Volume: 117 Issue: 49 Pages: 15606-15613

    • DOI

      10.1021/jp406109j

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Excitation Wavelength Dependence of Excited State Intramolecular Proton Transfer Reaction of 4´-N,N-diethylamino-3-hydroxyflavone in Room Temperature Ionic Liquids Studied by Optical Kerr Gate Fluorescence Measurement2013

    • Author(s)
      K. Suda, M. Terazima, H. Sato, Y. Kimura
    • Journal Title

      J.Phys.Chem.B

      Volume: 117 Issue: 41 Pages: 12567-12582

    • DOI

      10.1021/jp405537c

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Time-Resolved Tracking of Interprotein Signal Transduction: Synechocystis PixD-PixE complex as a Sensor of Light Intensity2012

    • Author(s)
      K. Tanaka, Y. Nakasone, K. Okajima, M. Ikeuchi, S. Tokutomi, M. Terazima
    • Journal Title

      J.Am.Chem.Soc

      Volume: 134 Issue: 20 Pages: 8336-8339

    • DOI

      10.1021/ja301540r

    • Related Report
      2013 Final Research Report 2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Study on the Excited-State Proton-Transfer Reaction of 5-cyano-2-naphthol in Sub- and Supercritical Water2012

    • Author(s)
      I. Kobayashi
    • Journal Title

      J. Phys. Chem. B

      Volume: 116 Issue: 3 Pages: 1043-1052

    • DOI

      10.1021/jp2097422

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Light-induced conformational change and product release in DNA repair by (6-4) photolyase2011

    • Author(s)
      M.Kondoh, K.Hitomi, J.Yamamoto, T.Todo, S.Iwai, E.D.Getzoff, M.Terazima
    • Journal Title

      J.Am.Chem.Soc.

      Volume: 133 Issue: 7 Pages: 2183-2191

    • DOI

      10.1021/ja107691w

    • Related Report
      2013 Final Research Report 2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] A way to sense light intensity: multiple-excitation of the BLUF photoreceptor TePixD suppresses conformational change2011

    • Author(s)
      K.Tanaka, Y. Nakasone, K.Okajima, M. Ikeuchi, S. Tokutomi, M. Terazima
    • Journal Title

      FEBS Lett

      Volume: 585 Issue: 5 Pages: 786-790

    • DOI

      10.1016/j.febslet.2011.02.003

    • Related Report
      2013 Final Research Report 2012 Final Research Report 2011 Annual Research Report 2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Photoreactions of Aureochrome-12011

    • Author(s)
      T.Toyooka, O.Hisatomi, F.Takahashi, H.Kataoka, M.Terazima
    • Journal Title

      Biophys.J.

      Volume: 100 Issue: 11 Pages: 2801-2809

    • DOI

      10.1016/j.bpj.2011.02.043

    • Related Report
      2013 Final Research Report 2012 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Light-Induced Conformational Change and Transient Dissociation Reaction of the BLUF Photoreceptor Synechocystis PixD (Slr1694)2011

    • Author(s)
      K.Tanaka, Y.Nakasone, K.Okajima, M.Ikeuchi, S.Tokutomi, M.Terazima
    • Journal Title

      J.Mol.Biol.

      Volume: 409 Issue: 5 Pages: 773-785

    • DOI

      10.1016/j.jmb.2011.04.032

    • NAID

      120003203917

    • Related Report
      2013 Final Research Report 2012 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Transient dissociation of the transducer protein from Anabaena sensory rhodopsin concomitant with formation of the M state produced upon photoactivation2011

    • Author(s)
      M.Kondoh, K.Inoue, J.Sasaki, J.Spudich, M.Terazima
    • Journal Title

      J.Am.Chem.Soc.

      Volume: 133 Issue: 34 Pages: 13406-13412

    • DOI

      10.1021/ja202329u

    • Related Report
      2013 Final Research Report 2012 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Temperature sensitive reaction of a photosensor protein YcgF: Possibility of a role of temperature sensor2010

    • Author(s)
      Y.Nakasone, T. Ono, A. Ishii, S.Masuda, M. Terazima
    • Journal Title

      Biochemistry

      Volume: 49 Issue: 10 Pages: 2288-2296

    • DOI

      10.1021/bi902121z

    • Related Report
      2013 Final Research Report 2012 Final Research Report 2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Kinetics of conformational changes of the FKF1-LOV domain upon photoexcitation2010

    • Author(s)
      Y.Nakasone, K.Zikihara, S.Tokutomi, M.Terazima
    • Journal Title

      Biophys.J. 99

      Pages: 3831-3839

    • NAID

      120002709547

    • Related Report
      2010 Self-evaluation Report
    • Peer Reviewed
  • [Journal Article] When is the helix conformation restored after the reverse reaction of Phototropin2010

    • Author(s)
      Y.Kawaguchi, Y.Nakasone, K.Zikihara, S.Tokutomi, M.Terazima
    • Journal Title

      J.Am.Chem.Soc. 132

      Pages: 8838-8839

    • Related Report
      2010 Self-evaluation Report
    • Peer Reviewed
  • [Journal Article] Kinetics of conformational changes of the FKF1-LOV domain upon photoexcitation2010

    • Author(s)
      Y.Nakasone, K.Zikihara, S.Tokutomi, M.Terazima
    • Journal Title

      Biophys.J.

      Volume: 99 Pages: 3831-3839

    • NAID

      120002709547

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Microtubule depolymerization at high pressure.2010

    • Author(s)
      M.Nishiyama
    • Journal Title

      Ann.N.Y.Acad.Sci.

      Volume: 1189 Pages: 86-90

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Photo-dissociation and Recombination of triiodide in room temperature ionic liquids.2010

    • Author(s)
      Y.Nishiyama
    • Journal Title

      Chem.Phys.Lett.

      Volume: 491 Pages: 164-168

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Excited State Intramolecular Proton Transfer Reaction of 4'-N, N-Diethylamino-3-Hydroxyflavone and Solvation Dynamics in Room Temperature Ionic Liquids Studied by Optical Kerr Gate Fluorescence Measurement.2010

    • Author(s)
      Y.Kimura
    • Journal Title

      J.Phys.Chem.

      Volume: 114 Pages: 11847-11858

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Oligomeric State-Dependent Conformational Change of a BLUF Protein TePixD (Tll0078)2009

    • Author(s)
      K.Tanaka, Y.Nakasone, K.Okajima, M.Ikeuchi, S.Tokutomi, M.Terazima
    • Journal Title

      J.Mol.Biol. 386

      Pages: 1290-1300

    • Related Report
      2010 Self-evaluation Report
    • Peer Reviewed
  • [Journal Article] Reaction dynamics of halorhodopsin studied by time-resolved diffusion2009

    • Author(s)
      K.Inoue, M.Kubo, M.Demura, N.Kamo, M.Terazima
    • Journal Title

      Biophys.J. 96

      Pages: 3724-3734

    • Related Report
      2010 Self-evaluation Report
    • Peer Reviewed
  • [Journal Article] Pressure-induced changes in the structure and function of the kinesin-microtubule complex2009

    • Author(s)
      M.Nishiyama, et al.
    • Journal Title

      Biophys.J. 96

      Pages: 1142-1150

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Reaction dynamics of halorhodopsin studied by time-resolved diffusion2009

    • Author(s)
      K.Inoue, et al.
    • Journal Title

      Biophys.J. 96

      Pages: 3724-3734

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Oligomeric State-Dependent Conformational Change of a BLUF Protein TePixD (T110078)2009

    • Author(s)
      K.Tanaka, et al.
    • Journal Title

      J.Mol.Biol. 386

      Pages: 1290-1300

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Stability of dimer and domain-domain interaction of Arabidopsis phototropin 1 LOV22008

    • Author(s)
      Y.Nakasone, T.Eitoku, K.Zikihara, D.Matsuoka, S.Tokutomi, M.Terazima
    • Journal Title

      J.Mol.Biol. 383

      Pages: 904-913

    • Related Report
      2010 Self-evaluation Report
    • Peer Reviewed
  • [Presentation] 揺らぎと分子間相互作用の時間分解検出2013

    • Author(s)
      寺嶋正秀
    • Organizer
      分子基盤に基づく生体機能への揺らぎとダイナミックネットワークの解明
    • Place of Presentation
      国際高等研究所
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] 「分光」では見えないタンパク質反応を時間分解分光で観る2013

    • Author(s)
      寺嶋正秀
    • Organizer
      生物物理学会北海道支部講演会
    • Place of Presentation
      北海道大学
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] Time-resolved thermodynamics for short lived intermediate species during protein reactions2013

    • Author(s)
      M.Terazima
    • Organizer
      10th International Workshop On Subsecond Thermophysics
    • Place of Presentation
      Karlsruhe, Germany
    • Related Report
      2012 Annual Research Report
  • [Presentation] Thermodynamic measurement of the structural fluctuation in the signaling state of phototropin2013

    • Author(s)
      Y. Nakasone, K. Zikihara, S. Tokutomi, M. Terazima
    • Organizer
      International Conference on Solution Chemistry
    • Place of Presentation
      京都
    • Related Report
      2012 Annual Research Report
  • [Presentation] Multiphoton excitation induces a biologically important protein reaction of a photosensor2013

    • Author(s)
      K. Kuroi, Y.Nakasone, Keisuke T., Koji Okajima, M.Ikeuchi, S. Tokutomi, M. Terazima
    • Organizer
      European Conference of Spectroscopy of Biological Molecules
    • Place of Presentation
      Oxfrord, UK
    • Related Report
      2012 Annual Research Report
  • [Presentation] 光センサー蛋白質フォトトロピンの活性状態における構造揺らぎの評価2012

    • Author(s)
      中曽根祐介,岡島公司,徳富哲,寺嶋正秀
    • Organizer
      分子科学討論会
    • Place of Presentation
      東京
    • Related Report
      2013 Final Research Report 2012 Final Research Report
  • [Presentation] Time-resolved detection of protein-protein interaction2011

    • Author(s)
      M.Terazima
    • Organizer
      8th European Biophysics Congress
    • Place of Presentation
      Budapest, Hungary
    • Related Report
      2013 Final Research Report 2012 Final Research Report
  • [Presentation] Spectrally silent photochemistry is important for biological reactions2011

    • Author(s)
      M.Terazima
    • Organizer
      Gordon Research Conference on Photochemistry
    • Place of Presentation
      Easton, USA
    • Related Report
      2013 Final Research Report 2012 Final Research Report 2011 Annual Research Report
  • [Presentation] A strange reaction of a photosensor protein : PixD2011

    • Author(s)
      M.Terazima
    • Organizer
      Third Korea-Japan Seminars on Biomolecular Sciences
    • Place of Presentation
      Jeju, Korea
    • Related Report
      2013 Final Research Report
  • [Presentation] A strange reaction of a photosensor protein: PixD2011

    • Author(s)
      M.Terazima
    • Organizer
      Third Korea-Japan Seminars on Biomolecular Sciences
    • Place of Presentation
      Jeju, Korea
    • Related Report
      2012 Final Research Report
  • [Presentation] 生体分子反応を理解するために2011

    • Author(s)
      寺嶋正秀
    • Organizer
      実験化学-理論化学交流シンポジウム
    • Place of Presentation
      京都大学福井謙-記念研究センター(招待)
    • Related Report
      2010 Annual Research Report
  • [Presentation] Role of water-protein interaction for the function of biological proteins2010

    • Author(s)
      M.Terazima
    • Place of Presentation
      Pacifichem, Honolulu, USA
    • Related Report
      2010 Self-evaluation Report
  • [Presentation] タンパク質反応における時間分解揺らぎ検出の試み2010

    • Author(s)
      寺嶋正秀
    • Organizer
      日本物理学会年会
    • Place of Presentation
      大阪府立大学
    • Related Report
      2010 Self-evaluation Report
  • [Presentation] Time-resolved observation of protein-protein interaction between blue-light receptor PixD and response regulator PixE2010

    • Author(s)
      K.Tanaka, Y.Nakasone, K.Okajima, M.Ikeuchi, S.Tokutomi, M.Terazima
    • Organizer
      生物物理学会年会
    • Place of Presentation
      仙台
    • Related Report
      2010 Self-evaluation Report
  • [Presentation] 青色光センサータンパク質PixDの光誘起反応ダイナミクス2010

    • Author(s)
      田中啓介、岡島公司、池内昌彦、徳富哲、寺嶋正秀
    • Organizer
      第4回分子科学討論会
    • Place of Presentation
      大阪
    • Related Report
      2010 Self-evaluation Report
  • [Presentation] 分子拡散の時間分解検出による光回復酵素のDNA光修復反応機構の解明2010

    • Author(s)
      近藤正人、人見研一、山元淳平、藤堂剛、岩井成憲、E.D.Getzoff, 寺嶋正秀
    • Organizer
      第90回日本化学会年会
    • Place of Presentation
      近畿大学
    • Related Report
      2010 Self-evaluation Report
  • [Presentation] AUREOCHROMEの光反応ダイナミクスの解明2010

    • Author(s)
      豊岡継泰
    • Organizer
      第4回分子科学討論会
    • Place of Presentation
      大阪大学
    • Related Report
      2009 Annual Research Report
  • [Presentation] バクテリオフィトクロムの構造変化ダイナミクスの研究2009

    • Author(s)
      松岡剛史
    • Organizer
      第3回分子科学討論会
    • Place of Presentation
      名古屋大学東山キャンパス
    • Related Report
      2008 Annual Research Report
  • [Presentation] Multiphoton photochemistry induces a reaction of a photosensor protein

    • Author(s)
      M. Terazima
    • Organizer
      7th Asian Photochemistry Conference
    • Place of Presentation
      Osaka, Japan
    • Related Report
      2011 Annual Research Report
  • [Book] 揺らぎ・ダイナミクスと生体機能―物理化学的視点から見た生体分子―2013

    • Author(s)
      寺嶋正秀編
    • Total Pages
      347
    • Publisher
      化学同人
    • Related Report
      2012 Annual Research Report
  • [Book] 揺らぎと生体機能総論, 揺らぎと生体機能 (寺嶋正秀監修) メディカルバイオ別冊2010

    • Author(s)
      寺嶋正秀
    • Publisher
      オーム社
    • Related Report
      2013 Final Research Report
  • [Book] 生体分子の反応中の揺らぎをとらえる分子科学手法, 揺らぎと生体機能 (寺嶋正秀監修) メディカルバイオ別冊2010

    • Author(s)
      寺嶋正秀
    • Publisher
      オーム社
    • Related Report
      2013 Final Research Report
  • [Book] 揺らぎと生体機能総論, 揺らぎと生体機能、寺嶋正秀監修、メディカルバイオ別冊2010

    • Author(s)
      寺嶋正秀
    • Publisher
      オーム社
    • Related Report
      2012 Final Research Report
  • [Book] 生体分子の反応中の揺らぎをとらえる分子科学手法, 揺らぎと生体機能、寺嶋正秀監修、メディカルバイオ別冊2010

    • Author(s)
      寺嶋正秀
    • Publisher
      オーム社
    • Related Report
      2012 Final Research Report
  • [Book] 揺らぎと生体機能(生体分子の反応中の揺らぎをとらえる分子科学手法)(寺嶋正秀監修)メディカルバイオ別冊2010

    • Author(s)
      寺嶋正秀
    • Publisher
      オーム社
    • Related Report
      2010 Self-evaluation Report
  • [Book] メディカルバイオ別冊「揺らぎと生体機能」2010

    • Author(s)
      寺嶋正秀
    • Total Pages
      7
    • Publisher
      オーム社
    • Related Report
      2009 Annual Research Report
  • [Book] 可視・紫外分光法2009

    • Author(s)
      寺嶋正秀・馬場正昭・冨宅喜代一・星野幹雄・松本剛昭・宮崎芳雄・西澤潔 共著
    • Publisher
      講談社サイエンティフィック
    • Related Report
      2010 Self-evaluation Report
  • [Book] Water and Biomolecules(Time-resolved detection of intermolecular interaction of photosensor proteins)(M.Terazima, Physical Chemistry of Life Phenomena, Eds.)2009

    • Author(s)
      K.Kuwajima, Y.Goto, F.Hirata, M.kataoka, M.Terazima
    • Publisher
      Springer
    • Related Report
      2010 Self-evaluation Report
  • [Book] Water and Biomolecules, Physical Chemistry of Life Phenomena (Eds.K.Kuwajima, Y.Goto, F.Hirata, M.kataoka, M.Terazima)2009

    • Author(s)
      M.Terazima
    • Total Pages
      23
    • Publisher
      Springer
    • Related Report
      2008 Annual Research Report
  • [Remarks]

    • URL

      http://kuchem.kyoto-u.ac.jp/hikari/

    • Related Report
      2013 Final Research Report
  • [Remarks]

    • URL

      http://kuchem.kyoto-u.ac.jp/hikari/

    • Related Report
      2012 Final Research Report
  • [Remarks] 揺らぎが機能を決める生命分子の科学

    • URL

      http://kuchem.kyoto-u.ac.jp/hikari/yuragi/

    • Related Report
      2012 Annual Research Report
  • [Remarks] 揺らぎが機能を決める生命分子の科学

    • URL

      http://kuchem.kyoto-u.ac.jp/hikari/yuragi/

    • Related Report
      2011 Annual Research Report
  • [Remarks] ホームページ

    • URL

      http://kuchem.kyoto-u.ac.jp/hikari/index.html

    • Related Report
      2010 Self-evaluation Report
  • [Remarks]

    • URL

      http://kuchem.kyoto-u.ac.jp/hikari/yuragi/

    • Related Report
      2010 Annual Research Report
  • [Remarks]

    • URL

      http://kuchem.kyoto-u.ac.jp/hikari/yuragi/

    • Related Report
      2009 Annual Research Report

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Published: 2008-04-01   Modified: 2019-07-29  

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