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Investigation of whole photo signal transduction cascade at high spatial and temporal resolutions

Research Project

Project/Area Number 23687019
Research Category

Grant-in-Aid for Young Scientists (A)

Allocation TypeSingle-year Grants
Research Field Biophysics
Research InstitutionOkayama University (2014)
Nagoya University (2011-2013)

Principal Investigator

SUDO Yuki  岡山大学, 医歯(薬)学総合研究科, 教授 (10452202)

Research Collaborator TSUKAMOTO Takashi  
Project Period (FY) 2011-04-01 – 2015-03-31
Project Status Completed (Fiscal Year 2014)
Budget Amount *help
¥27,300,000 (Direct Cost: ¥21,000,000、Indirect Cost: ¥6,300,000)
Fiscal Year 2014: ¥4,940,000 (Direct Cost: ¥3,800,000、Indirect Cost: ¥1,140,000)
Fiscal Year 2013: ¥6,110,000 (Direct Cost: ¥4,700,000、Indirect Cost: ¥1,410,000)
Fiscal Year 2012: ¥9,230,000 (Direct Cost: ¥7,100,000、Indirect Cost: ¥2,130,000)
Fiscal Year 2011: ¥7,020,000 (Direct Cost: ¥5,400,000、Indirect Cost: ¥1,620,000)
Keywords情報伝達 / 光 / 構造変化 / レチナールタンパク質 / 膜タンパク質 / 光情報伝達 / 生物物理学 / 発色団 / 生物物理 / 分子認識 / 光生物 / 分光法
Outline of Final Research Achievements

Protein molecules are working in organisms with changes in spatial and temporal domains, resulting in a variety of biological functions. Thus it is essential to understand the proteins from the spatial and temporal aspects. In this study, we focused on photo signal transduction mechanism regulated by the photoactive retinal proteins and we investigated it at various spatial and temporal resolutions.

Report

(5 results)
  • 2014 Annual Research Report   Final Research Report ( PDF )
  • 2013 Annual Research Report
  • 2012 Annual Research Report
  • 2011 Annual Research Report
  • Research Products

    (57 results)

All 2015 2014 2013 2012 2011 Other

All Journal Article (21 results) (of which Peer Reviewed: 21 results,  Acknowledgement Compliant: 2 results) Presentation (26 results) (of which Invited: 26 results) Book (9 results) Remarks (1 results)

  • [Journal Article] Converting a light-driven proton pump into a light-gated proton channel2015

    • Author(s)
      K. Inoue, T. Tsukamoto, K. Shimono, Y. Suzuki, S. Miyauchi, S. Hayashi, H. Kandori, Y. Sudo*
    • Journal Title

      J. Am. Chem. Soc.

      Volume: 137 Issue: 9 Pages: 3291-3299

    • DOI

      10.1021/ja511788f

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Atomistic design of microbial opsin-based blue-Shifted optogenetics tools2015

    • Author(s)
      Kato, H. E., Kamiya, M., Sugo, S., Ito, J., Taniguchi, R., Orito, A., Hirata, K., Inutsuka, A., Yamanaka, A., Maturana, A., Ishitani, R., Sudo, Y., *Hayashi, S., & *Nureki, O.
    • Journal Title

      Nat. Commun.

      Volume: 印刷中

    • NAID

      120005745621

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Factors affecting the stability and performance of ionic liquid-based planar transient photodetectors2015

    • Author(s)
      *Dalgleish, S., Reissig, L., Hu, L., Matsushita, M.M., Sudo, Y., & *Awaga, K.
    • Journal Title

      Langmuir

      Volume: 印刷中 Issue: 18 Pages: 5235-5243

    • DOI

      10.1021/la504972q

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Irreversible trimer to monomer transition of thermophilic rhodopsin upon thermal stimulation2014

    • Author(s)
      Tsukamoto, T., Demura, M., & *Sudo, Y.
    • Journal Title

      J. Phys. Chem. B

      Volume: 118 Issue: 43 Pages: 12383-12394

    • DOI

      10.1021/jp507374q

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Color discriminating retinal configurations of sensory rhodopsin I by photo-irradiation solid state NMR spectroscopy.2014

    • Author(s)
      Yornoda, H., Makino, Y., Tomonaga, Y., Hidaka, T., Kawamura, I., Okitsu, T., Wada, A., Sudo, Y., Naito, A.
    • Journal Title

      Angew. Chem. Int. Ed.

      Volume: (印刷中) Issue: 27 Pages: 7080-7084

    • DOI

      10.1002/ange.201309258

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] The early steps in the photocycle of a photosensor protein sensory rhodopsin I from Salinibacter ruber2014

    • Author(s)
      Sudo, Y., Mizuno, M., Wei, Z., Takeuchi S., Tahara. T., Mizutani. Y.
    • Journal Title

      J. Phys. Chem. B

      Volume: 118 Issue: 6 Pages: 1510-1518

    • DOI

      10.1021/jp4112662

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Thermal and spectroscopic characterization of a proton pumping rhodopsin from an extreme thermophile2013

    • Author(s)
      Tsukamoto, T., Inoue, K., Kandori, H., Sudo, Y.
    • Journal Title

      J. Biol. Chem.

      Volume: 288 Issue: 30 Pages: 21581-21592

    • DOI

      10.1074/jbc.m113.479394

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] A blue-shifted light-driven proton pump for neural silencing2013

    • Author(s)
      Sudo, Y., Okazaki, A., Ono, H., Yagasaki, J., Sugo, S., Kamiya, M., Reissig, L., Inoue, K., Ihara, K., Kandori, H., Takagi, S., Hayashi, S.
    • Journal Title

      J. Biol. Chem.

      Volume: 288 Issue: 28 Pages: 20624-20632

    • DOI

      10.1074/jbc.m113.475533

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Investigation of the chromophore binding cavity in the 11-cis acceptable microbial rhodopsin MR2013

    • Author(s)
      Mori, A., Yagasaki, J., Homma, M., Reissig, L., & *Sudo, Y.
    • Journal Title

      Chem. Phys.

      Volume: 419 Pages: 23-29

    • DOI

      10.1016/j.chemphys.2012.11.020

    • Related Report
      2013 Annual Research Report 2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Large spectral change due to amide modes of a β-sheet upon the formation of an early photointermediate of middle rhodopsin2013

    • Author(s)
      Furutani, Y., Okitsu, T., Reissig, L., Mizuno, M., Homma, M., Wada, A., Mizutani, Y., Sudo, Y.
    • Journal Title

      J. Phys. Chem. B

      Volume: 117 Issue: 13 Pages: 3449-3458

    • DOI

      10.1021/jp308765t

    • Related Report
      2013 Annual Research Report 2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Expression, purification and biochemical characterization of the cytoplasmic loop of PomA, a stator component of the Na<sup>+</sup> driven flagellar motor2013

    • Author(s)
      Abe R
    • Journal Title

      BIOPHYSICS

      Volume: 9 Issue: 0 Pages: 21-29

    • DOI

      10.2142/biophysics.9.21

    • NAID

      130003366026

    • ISSN
      1349-2942
    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] "The influence of halide binding on the hydrogen bonding network in the active site of Salinibacter sensory rhodopsin I"2012

    • Author(s)
      L. Reissig, T. Iwata, T. Kikukawa, M. Demura, N. Kamo, H. Kandori and Y. Sudo
    • Journal Title

      Biochemistry

      Volume: 51 Issue: 44 Pages: 8802-8813

    • DOI

      10.1021/bi3009592

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Photo-induced regulation of the chromatic adaptive gene expression by Anabaena sensory rhodopsin2012

    • Author(s)
      Irieda, H., Morita, T., Maki, K., Homma, M., Aiba, H., & *Sudo, Y.
    • Journal Title

      J. Biol. Chem.

      Volume: 287 Issue: 39 Pages: 32485-32493

    • DOI

      10.1074/jbc.m112.390864

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Optical Silencing of C. elegans Cells with Arch Proton Pump2012

    • Author(s)
      Okazaki A, Sudo Y, Takagi S
    • Journal Title

      PLoS ONE

      Volume: 7(5) Issue: 5 Pages: e35370-e35370

    • DOI

      10.1371/journal.pone.0035370

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] "Absorption spectra and photochemical reactions in a unique photoactive protein, middle rhodopsin MR"2012

    • Author(s)
      K. Inoue, L. Reissig, M. Sakai, S. Kobayashi, M. Homma, M. Fujii, H. Kandori, and Y. Sudo
    • Journal Title

      J. Phys. Chem. B

      Volume: 116 Issue: 20 Pages: 5888-5899

    • DOI

      10.1021/jp302357m

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Spectral tuning in sensory rhodopsin I from Salinibacter ruber2011

    • Author(s)
      Sudo, Y., Yuasa, Y., Shibata, J., Suzuki, D., Homma, M.
    • Journal Title

      J.Biol.Chem.

      Volume: 286 Issue: 13 Pages: 11328-11336

    • DOI

      10.1074/jbc.m110.187948

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Direct observation of the structural change of Tyr174 in the primary reaction of sensory rhodopsin II2011

    • Author(s)
      Misao Mizuno, Yuki Sudo, Michio Homma and Yasuhisa Mizutani
    • Journal Title

      Biochemistry

      Volume: 50 Issue: 15 Pages: 3170-3180

    • DOI

      10.1021/bi101817y

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Spectrally silent intermediates during the photochemical reactions of Salinibacter sensory rhodopsin I2011

    • Author(s)
      K.Inoue, Y.Sudo, M.Homma, H.Kandori
    • Journal Title

      J.Phys.Chem.B

      Volume: 115 Issue: 15 Pages: 4500-4508

    • DOI

      10.1021/jp2000706

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Structural characteristics around β-ionone ring of the retinal chromophore in Salinibacter sensory rhodopsin I2011

    • Author(s)
      H.Irieda, L.Reissig, A.Kawanabe, M.Homma, H.Kandori, Y.Sudo
    • Journal Title

      Biochemistry

      Volume: 50 Issue: 22 Pages: 4912-4922

    • DOI

      10.1021/bi200284s

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Functional expression of a two-transmembrane HtrII protein using cell-free synthesis2011

    • Author(s)
      Sudo, Y., Tanaka, R., Kobayashi, T., Kamo, N., Kohno, T., Kojima, C.
    • Journal Title

      BIOPHYSICS

      Volume: 7 Pages: 51-58

    • DOI

      10.2142/biophysics.7.51

    • NAID

      130000741389

    • ISSN
      1349-2942
    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] An active photoreceptor intermediate revealed by in situ photoirradiated solid-state NMR spectroscopy2011

    • Author(s)
      Tomonaga, Y., Hidaka, T, Kawamura, I, Nishio, T, Ohsawa, K, Okitsu, T, Wada, A, Sudo, Y, Kamo, N, Ramamoorthy, A, Naito, A.
    • Journal Title

      Biophys.J.

      Volume: 101 Issue: 10 Pages: L50-L52

    • DOI

      10.1016/j.bpj.2011.10.022

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Presentation] 光受容レチナールタンパク質の構造・機能解析:光 + タンパク質 = 薬!?2015

    • Author(s)
      須藤雄気
    • Organizer
      日本薬学会第135年会・シンポジウム 「受容体とトランスポーターの構造薬理学」
    • Place of Presentation
      神戸市, 兵庫県
    • Year and Date
      2015-03-27
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] ビタミンAアルデヒドを発色団とする光受容タンパク質の多様性と可能性が拓く光創薬科学2015

    • Author(s)
      須藤雄気
    • Organizer
      神戸薬科大学特別研究セミナー
    • Place of Presentation
      神戸市, 兵庫県
    • Year and Date
      2015-02-20
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] レチナールタンパク質が拓くフォトクロミックバイオマテリアル2015

    • Author(s)
      須藤雄気
    • Organizer
      第3回 日本バイオマテリアル学会中四国シンポジウム
    • Place of Presentation
      岡山市, 岡山県
    • Year and Date
      2015-01-28
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] 高い安定性を示す新規レチナールタンパク質TRの機能・構造と光操作への展開2015

    • Author(s)
      須藤雄気
    • Organizer
      新学術領域研究 『柔らかな分子系』 第8回ワークショップ
    • Place of Presentation
      瀬戸内市, 岡山県
    • Year and Date
      2015-01-25
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] レチナールタンパク質による光合成モドキが 世界を救う!?2014

    • Author(s)
      須藤雄気
    • Organizer
      自然科学研究機構 分間連携ワークショップ
    • Place of Presentation
      蒲郡市, 愛知県
    • Year and Date
      2014-10-25
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] Molecular-based rational design and engineering of microbial retinal proteins for optogenetics2014

    • Author(s)
      Sudo, Y.
    • Organizer
      The 16th International Conference on Retinal Proteins
    • Place of Presentation
      Nagahama, Shiga, Japan
    • Year and Date
      2014-10-09
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] 光駆動イオンポンプから光開閉性イオンチャネルへの機能変換2014

    • Author(s)
      須藤雄気
    • Organizer
      第52回日本生物物理学会年会
    • Place of Presentation
      札幌市, 北海道
    • Year and Date
      2014-09-26
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] Rational Design and Engineering of Photoactive Retinal Proteins2014

    • Author(s)
      Sudo, Y.
    • Organizer
      The 2nd Awaji International Workshop on “Electron Spin Science & Technology: Biological and Materials Science Oriented Applications (2nd AWEST 2014)
    • Place of Presentation
      淡路島, 兵庫県
    • Year and Date
      2014-06-17
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] Photobiophysical chemistry: What should we learn from retinal proteins?2014

    • Author(s)
      Sudo, Y.
    • Organizer
      iCeMS symposium on Mesoscopic Chemical Biology: Integrated Chemical-Physical Systems Towards Cell Control
    • Place of Presentation
      Kyoto
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] 微生物型レチナールタンパク質の非常識で未来を拓く2013

    • Author(s)
      須藤雄気
    • Organizer
      分子科学研究所研究会「ロドプシン研究の故きを温ねて新しきを知る」
    • Place of Presentation
      岡崎
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] 光受容レチナールタンパク質の常識と非常識2013

    • Author(s)
      須藤雄気
    • Organizer
      東京工業大学第1回生体分子専攻・若手コロキウム
    • Place of Presentation
      横浜
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] 微生物型レチナールタンパク質の理解と利用2013

    • Author(s)
      須藤雄気
    • Organizer
      大阪市立大学セミナー
    • Place of Presentation
      大阪
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] ロドプシンの、ロドプシンによる、ロドプシンのための蛋白質科学2013

    • Author(s)
      須藤雄気
    • Organizer
      大阪大学蛋白研セミナー
    • Place of Presentation
      大阪
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] Functional diversity of sensory rhodopsins from microbes

    • Author(s)
      Sudo, Y.
    • Organizer
      15th International Conference on Retinal Proteins
    • Place of Presentation
      Monte Verita (Ascona, Switzerland)
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] 光操作技術の基盤となるロドプシン分子の多様性と可能性

    • Author(s)
      須藤雄気
    • Organizer
      第7回・NIBBバイオイメージングフォーラム
    • Place of Presentation
      自然科学研究機構 基礎生物学研究所(愛知県)
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] 分子からのボトムアップ研究で拓く光細胞・個体操作

    • Author(s)
      須藤雄気
    • Organizer
      細胞を創る」研究会5.0
    • Place of Presentation
      東京工業大学(神奈川県)
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] 微生物の光利用と光制御ツール開発

    • Author(s)
      須藤雄気
    • Organizer
      「次世代の光の利用と物質材料・生命機能」研究会
    • Place of Presentation
      早稲田大学(東京都)
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] 「Simple is the first? 」: 微生物由来レチナール蛋白質の分子進化と多様性

    • Author(s)
      須藤雄気
    • Organizer
      第14回日本進化学会年会
    • Place of Presentation
      首都大学東京(東京都)
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] 微生物型光受容タンパク質の解析と光制御ツール開発

    • Author(s)
      須藤雄気
    • Organizer
      第17回日本光生物学協会年会
    • Place of Presentation
      大阪大学(大阪府)
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] 光生物物理学-基礎研究のススメ。渇望される薬学部生

    • Author(s)
      須藤雄気
    • Organizer
      北海道大学薬学部 第19回「先輩と語る」講演会
    • Place of Presentation
      北海道大学(北海道)
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] Cell and micro-organism manipulations with photo-functional and photo-controllable proteins

    • Author(s)
      Sudo, Y.
    • Organizer
      AS-JST Joint Workshop on Innovative Use of Light and Nano/Bio
    • Place of Presentation
      アカデミアシニカ(台北市,台湾)
    • Related Report
      2011 Annual Research Report
    • Invited
  • [Presentation] 7回膜貫通型色素結合タンパク質(ロドプシン)の調製法

    • Author(s)
      須藤雄気
    • Organizer
      第11回・日本蛋白質科学会年会 蛋白質科学会アーカイブワークショップ
    • Place of Presentation
      ホテル阪急エキスポパーク(大阪府)
    • Related Report
      2011 Annual Research Report
    • Invited
  • [Presentation] Molecular and evolutionary aspects of microbial sensory rhodopsin

    • Author(s)
      Sudo, Y., Homma, M.
    • Organizer
      5th Asia and Oceania Conference for Photobiology (AOCP)
    • Place of Presentation
      奈良県新公会堂(奈良県)
    • Related Report
      2011 Annual Research Report
    • Invited
  • [Presentation] 微生物型ロドプシンタンパク質における特異な光反応

    • Author(s)
      須藤雄気, 本間道夫
    • Organizer
      生理学研究所研究会「作動中の膜機能分子の姿を捉える-静止画から動画へ-」
    • Place of Presentation
      自然科学研究機構 生理学研究所(愛知県)
    • Related Report
      2011 Annual Research Report
    • Invited
  • [Presentation] What should we learn from sensory rhodopsins? : Signal transfer mechanism and its application for protein expression

    • Author(s)
      須藤雄気, 本間道夫
    • Organizer
      日本生物物理学会 第49回年会
    • Place of Presentation
      兵庫県立大学(兵庫県)
    • Related Report
      2011 Annual Research Report
    • Invited
  • [Presentation] 色付きタンパク質の生物学的・化学的・物理学的研究の面白さと奥深さ

    • Author(s)
      須藤雄気
    • Organizer
      第1回超異分野学会
    • Place of Presentation
      お茶の水女子大学(東京都)
    • Related Report
      2011 Annual Research Report
    • Invited
  • [Book] Optogenetics, Chapter 7, Color tuning in retinylidene proteins2015

    • Author(s)
      Katayama, K., Sekharan, S., & *Sudo, Y.
    • Publisher
      Springer Verlag Tokyo
    • Related Report
      2014 Annual Research Report
  • [Book] 好熱性細菌のレチナールタンパク質2015

    • Author(s)
      塚本卓、須藤雄気
    • Total Pages
      3
    • Publisher
      生物物理
    • Related Report
      2014 Annual Research Report
  • [Book] ビタミンAアルデヒドを発色団とするレチナールタンパク質の多様性と可能性2015

    • Author(s)
      土井聡子、須藤雄気
    • Total Pages
      4
    • Publisher
      ビタミン学会誌
    • Related Report
      2014 Annual Research Report
  • [Book] オプトジェネティクス(光遺伝学)の原理と基礎2015

    • Author(s)
      須藤雄気、神取秀樹
    • Total Pages
      5
    • Publisher
      ファルマシア
    • Related Report
      2014 Annual Research Report
  • [Book] 膜タンパク質の可溶化(抽出)(2)2014

    • Author(s)
      須藤雄気、塚本卓
    • Total Pages
      10
    • Publisher
      蛋白質科学会・アーカイブ
    • Related Report
      2014 Annual Research Report
  • [Book] Molecular and evolutionary aspects of microbial sensory rhodopsins2014

    • Author(s)
      Inoue, K., Tsukamoto, T., & *Sudo, Y.
    • Total Pages
      16
    • Publisher
      Biochim. Biophys. Acta
    • Related Report
      2013 Annual Research Report
  • [Book] Sensory rhodopsins2014

    • Author(s)
      Tsukamoto, T., & *Sudo, Y.
    • Total Pages
      7
    • Publisher
      In: eLS. John Wiley & Sons, Ltd: Chichester.
    • Related Report
      2013 Annual Research Report
  • [Book] オプトジェネティクス-光工学と遺伝学による行動制御技術の最前線(分担執筆)2013

    • Author(s)
      須藤雄気
    • Total Pages
      324
    • Publisher
      エヌ・ティー・エス
    • Related Report
      2012 Annual Research Report
  • [Book] 高度好塩性微生物の“目”:センサリーロドプシンへのCl-イオン結合の役割2011

    • Author(s)
      須藤雄気、井原邦夫、本間道夫、加茂直樹
    • Total Pages
      7
    • Publisher
      極限環境微生物学会誌
    • Related Report
      2011 Annual Research Report
  • [Remarks] 須藤研究室ホームページ

    • URL

      http://www.pharm.okayama-u.ac.jp/lab/bukka/page3.html

    • Related Report
      2014 Annual Research Report

URL: 

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

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