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Analysis of interaction, ion transport and structural change in a stator complex of bacterial flagellar motor

Research Project

Project/Area Number 21770166
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeSingle-year Grants
Research Field Biophysics
Research InstitutionNagoya University

Principal Investigator

SUDO Yuki  Nagoya University, 理学研究科, 准教授 (10452202)

Project Period (FY) 2009 – 2010
Project Status Completed (Fiscal Year 2010)
Budget Amount *help
¥4,550,000 (Direct Cost: ¥3,500,000、Indirect Cost: ¥1,050,000)
Fiscal Year 2010: ¥2,210,000 (Direct Cost: ¥1,700,000、Indirect Cost: ¥510,000)
Fiscal Year 2009: ¥2,340,000 (Direct Cost: ¥1,800,000、Indirect Cost: ¥540,000)
Keywords膜タンパク質 / 分子モーター / イオン透過 / 相互作用 / 生物物理学 / 生化学 / 分光学 / べん毛モーター / 分光法
Research Abstract

Motile microorganisms, such as bacteria and archaea, sense and respond to extracellular stimuli by changing their swimming mode to migrate towards more favorite habitats. In this research, we analyzed interaction, ion transport and structural changes in a stator complex of the bacterial flagellar motor using biophysical techniques. By means of attenuated total reflection Fourier-transform infrared spectroscopy, we directly observed binding of Na^+ to carboxylates in the Pom/B complex, including the functionally essential residue Asp24 (Sudo et al.2009b, Biochemistry). We also demonstrated that Ala39-MotB and Cys31-PomB form part of the ion flux pathway (Sudo et al. 2009, Biophysics), and reported the crystal structure of C-terminal region of MotB (Kojima et al. 2009, Mol.Microbiol.). Moreover we found and characterized new receptor proteins (Suzuki et al. 2009, J.Mol.Biol., Sudo et al.2009a, Biochemistry, Yagasaki et al.2010, Biochemistry, Sudo et al. 2011, J.Biol.Chem.).

Report

(3 results)
  • 2010 Annual Research Report   Final Research Report ( PDF )
  • 2009 Annual Research Report
  • Research Products

    (49 results)

All 2011 2010 2009 Other

All Journal Article (26 results) (of which Peer Reviewed: 15 results) Presentation (19 results) Remarks (3 results) Patent(Industrial Property Rights) (1 results)

  • [Journal Article] A microbial rhodopsin with a unique retinal composition shows both sensory rhodopsin II and bacteriorhodopsin-like properties2011

    • Author(s)
      Sudo, Y., Ihara, K., Kobayashi, S., Suzuki, D., Irieda, H., Kikukawa, T., Kandori, H., Homma, M.
    • Journal Title

      J.Biol.Chem 286

      Pages: 5967-5976

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] A microbial rhodopsin with a unique retinal composition shows bothsensory rhodopsin II and bacteriorhodopsin-like properties2011

    • Author(s)
      Sudo, Y., Ihara, K., Kobayashi, S., Suzuki, D., Irieda, H., Kikukawa, T., Kandori, H., Homma, M.
    • Journal Title

      Journal of Biological Chemistry

      Volume: 286 Pages: 5967-5976

    • Related Report
      2010 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

      Journal of Biological Chemistry

      Volume: 286 Pages: 11328-11336

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Direct observation of the structural change of Tyr174 in the primary reactions sensory rhodopsin II2011

    • Author(s)
      Mizuno, M., Sudo.Y., Homma, M., Mizutani, Y.
    • Journal Title

      Biochemistry

      Volume: 50 Pages: 3170-3180

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Spectrally silent intermediates during the photochemical reactions of Salinibacter sensory rhodopsin I2011

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

      Journal of Physical Chemistry B

      Volume: (印刷中)

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Transport and sensory rhodopsins in microorganisms2011

    • Author(s)
      Sudo.Y
    • Journal Title

      CRC Handbook of Organic Photochemistry and Photobiology, the 3rd edition.

      Volume: (未定 印刷中)

    • Related Report
      2010 Annual Research Report
  • [Journal Article] 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
    • Journal Title

      極限環境微生物学会誌

      Volume: (未定 印刷中)

    • NAID

      40019582700

    • Related Report
      2010 Annual Research Report
  • [Journal Article] Spectroscopic studies of a sensory rhodopsin I homologue from the archaeon Haloarcula vallismortis2010

    • Author(s)
      Yagasaki, J., Suzuki., D., Ihara, K., Inoue, K., Kikukawa, T., Sakai, M., Fujii, M., Homma, M., Kandori, H., Sudo, Y.
    • Journal Title

      Biochemistry 49

      Pages: 1183-1190

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] ロドプシン研究はどこに行くのか?"2010

    • Author(s)
      須藤雄気
    • Journal Title

      生物物理 50

      Pages: 160-161

    • Related Report
      2010 Final Research Report
  • [Journal Article] 光で動く微生物-ロドプシン分子による光受容と情報伝達機構2010

    • Author(s)
      割石学、本間道夫、須藤雄気
    • Journal Title

      OplusE「特集:光アクチュエーター」

      Pages: 519-524

    • Related Report
      2010 Final Research Report
  • [Journal Article] Protein-protein interaction changes in an archaeal light-signal transduction2010

    • Author(s)
      Kandori, H., Sudo, Y., Furutani, Y.
    • Journal Title

      J.Biomed.Biotechnol 424760

      Pages: 14-14

    • Related Report
      2010 Final Research Report
  • [Journal Article] Phototactic and chemotactic signal transduction by transmembrane receptors and transducers in microorganisms2010

    • Author(s)
      Suzuki, D., Irieda, H., Homma, M., Kawagishi, I., Sudo, Y.
    • Journal Title

      Sensors 10

      Pages: 4010-4039

    • Related Report
      2010 Final Research Report
  • [Journal Article] 光で動く微生物-ロドプシン分子による光受容と情報伝達機構2010

    • Author(s)
      割石学、本間道夫、須藤雄気
    • Journal Title

      O plus E「特集:光アクチュエーター」

      Volume: 32 Pages: 519-524

    • Related Report
      2010 Annual Research Report
  • [Journal Article] Protein-protein interaction changes in an archaeal light-signal transduction2010

    • Author(s)
      Kandori, H., Sudo Y., Furutani, Y.
    • Journal Title

      Journal of Biomedicine and Biotechnology

      Volume: Article ID 424760 Pages: 14-14

    • Related Report
      2010 Annual Research Report
  • [Journal Article] Spectroscopic studies of a sensory rhodopsin I homologue from the archaeon Haloarcula vallismortis2010

    • Author(s)
      Yagasaki J, Suzuki D, Ihara K, Inoue K, Kikukawa T, Sakai M, Fujii M, Homma M, Kandori H, ^*Sudo Y.
    • Journal Title

      Biochemistry 49

      Pages: 1183-1190

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Phototactic and chemotactic signal transduction by transmembrane receptors and transducers in microorganisms [Review]2010

    • Author(s)
      Suzuki D, Irieda H, Homma M, Kawaqishi I, ^*Sudo Y.
    • Journal Title

      Sensors 10

      Pages: 4010-4039

    • Related Report
      2009 Annual Research Report
  • [Journal Article] ロドプシン研究はどこへ行くのか?2010

    • Author(s)
      須藤雄気
    • Journal Title

      生物物理学会誌・特集「日本発の生物物理学」 (未定)(印刷中)

    • Related Report
      2009 Annual Research Report
  • [Journal Article] Effects of chloride ion binding on the photochemical properties of Salinibacter sensory rhodopsin I2009

    • Author(s)
      Suzuki, D., Furutani, Y., Inoue, K., Kikukawa, T., Sakai, M., Fujii, M., Kandori, H., Homma, M., Sudo, Y.
    • Journal Title

      J.Mol.Biol. 392

      Pages: 48-62

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Stator assembly and activation mechanism of the flagellar motor by the periplasmic region of MotB2009

    • Author(s)
      Kojima, S., Imada, K., Sakuma, M., Sudo, Y., Kojima, C., Minamino, T., Homma, M., Nammba, K.
    • Journal Title

      Mol.Microbiol 73

      Pages: 710-718

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Characterization of a signaling complex composed of sensory rhodopsin I and its cognate transducer protein from the eubacterium Salinibacter ruber2009

    • Author(s)
      Sudo, Y., Okada, A., Suzuki, D., Inoue, K., Irieda, H., Sakai, M., Fujii, M., Furutani, Y., Kandori, H., Homma, M.
    • Journal Title

      Biochemistry 48

      Pages: 10136-10145

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Interaction between Na(+) ion and carboxylates of the PomA-PomB stator unit studied by ATR-FTIR spectroscopy2009

    • Author(s)
      Sudo, Y., Kitade, Y., Furutani, Y., Kojima, M., Kojima, S., Homma, M., Kandori, H.
    • Journal Title

      Biochemistry 48

      Pages: 11699-11705

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Interaction between Na^+ ion and carboxylates of the PomA-PomB stator unit studied by ATR-FTIR spectroscopy2009

    • Author(s)
      Sudo Y, Kitade Y, Furutani Y, Kojima M, Kojima S, Homma M, ^*Kandori H.
    • Journal Title

      Biochemistry 48

      Pages: 11699-11705

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Characterization of a signaling complex composed of sensory rhodopsin I and its cognate transducer protein from the eubacterium Salinibacter ruber2009

    • Author(s)
      ^*Sudo Y, Okada A, Suzuki D, Inoue K, Irieda H, Sakai M, Fujii M, Furutani Y, Kandori H, Homma M.
    • Journal Title

      Biochemistry 48

      Pages: 10136-10145

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Stator assembly and activation mechanism of the flagellar motor by the periplasmic region of MotB2009

    • Author(s)
      Kojima S, ^*Imada K, Sakuma M, Sudo Y, Kojima C, Minamino T, ^*Homma M, ^*Namba K.
    • Journal Title

      Mol.Microbiol. 73

      Pages: 710-718

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Effects of chloride ion binding on the photochemical properties of salinibacter sensory rhodopsin I2009

    • Author(s)
      Suzuki D, Furutani Y, Inoue K, Kikukawa T, Sakai M, Fujii M, Kandori H, Homma M, ^*Sudo Y.
    • Journal Title

      J.Mol.Biol. 392

      Pages: 48-62

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] 細菌が緑色を感じる仕組み-色素タンパク質の新しい色決定機構-2009

    • Author(s)
      須藤雄気
    • Journal Title

      名大トピックス 198

      Pages: 12-13

    • Related Report
      2009 Annual Research Report
  • [Presentation] 光受容タンパク質による微生物の光センシングの理解とその利用2011

    • Author(s)
      須藤雄気、本間道夫
    • Organizer
      日本薬学会第131年会
    • Place of Presentation
      静岡,日本
    • Year and Date
      2011-03-29
    • Related Report
      2010 Final Research Report
  • [Presentation] 光受容タンパク質による微生物の光センシングの理解とその利用2011

    • Author(s)
      須藤雄気、本間道夫
    • Organizer
      日本薬学会第131年会
    • Place of Presentation
      静岡県静岡市、日本
    • Year and Date
      2011-03-29
    • Related Report
      2010 Annual Research Report
  • [Presentation] Microbial Sensory Rhodopsins: Structural change, function and tool for optogenetics2010

    • Author(s)
      Sudo, Y., Homma, M.
    • Organizer
      GCOE/Structural Biology Research Center International Symposium: Protein structure and dynamics; from molecules to assembly
    • Place of Presentation
      Nagoya, Japan.
    • Year and Date
      2010-11-24
    • Related Report
      2010 Final Research Report
  • [Presentation] Microbial Sensory Rhodopsins : Structural change, function and tool for optogenetics2010

    • Author(s)
      Sudo.Y., Homma, M.
    • Organizer
      GCOE/Structural Biology Research Center International Symposium : Protein structure and dynamics ; from molecules to assembly
    • Place of Presentation
      愛知県名古屋市、日本
    • Year and Date
      2010-11-24
    • Related Report
      2010 Annual Research Report
  • [Presentation] 微生物型ロドプシンの分子進化2010

    • Author(s)
      須藤雄気、本間道夫
    • Organizer
      生理学研究所研究会
    • Place of Presentation
      愛知県岡崎市、日本
    • Year and Date
      2010-09-17
    • Related Report
      2010 Annual Research Report
  • [Presentation] 機能性・制御性膜タンパク質(微生物型ロドプシン)による新しい解析ツールの創成に向けて2010

    • Author(s)
      須藤雄気、本間道夫
    • Organizer
      生理研研究会「作動中の膜機能分子の姿を捉える」
    • Place of Presentation
      岡崎,日本
    • Year and Date
      2010-09-16
    • Related Report
      2010 Final Research Report
  • [Presentation] 機能性・制御性膜タンパク質(微生物型ロドプシン)による新しい解析ツールの創成に向けて2010

    • Author(s)
      須藤雄気
    • Organizer
      生理研研究会「光操作研究会」
    • Place of Presentation
      岡崎, 日本
    • Year and Date
      2010-09-09
    • Related Report
      2010 Final Research Report
  • [Presentation] 機能性・制御性膜タンパク質(微生物型ロドプシン)による新しい解析ツールの創成に向けて2010

    • Author(s)
      須藤雄気
    • Organizer
      第2回光操作研究会
    • Place of Presentation
      愛知県岡崎市、日本
    • Year and Date
      2010-09-09
    • Related Report
      2010 Annual Research Report
  • [Presentation] 生物物理を愛して10年、ロドプシン分子のこれからの10年、DABESA!!2010

    • Author(s)
      須藤雄気
    • Organizer
      第50回・生物物理若手の会夏の学校講演
    • Place of Presentation
      一宮, 日本
    • Year and Date
      2010-09-04
    • Related Report
      2010 Final Research Report
  • [Presentation] 生物物理を愛して10年、ロドプシン分子のこれからの10年、DABESA!!2010

    • Author(s)
      須藤雄気
    • Organizer
      第50回生物物理若手の会夏の学校
    • Place of Presentation
      愛知県一宮市、日本
    • Year and Date
      2010-09-04
    • Related Report
      2010 Annual Research Report
  • [Presentation] Molecular Evolution from the light-energy converting protein to the light sensing protein2010

    • Author(s)
      Sudo, Y., Irieda, H., Ihara, K., Homma, M.
    • Organizer
      The 48th Annual Meeting of the Biophysical Society of Japan
    • Place of Presentation
      宮城県仙台市、日本
    • Year and Date
      2010-09-02
    • Related Report
      2010 Annual Research Report
  • [Presentation] 光駆動イオンポンプ蛋白質から、光センサー蛋白質への分子進化2010

    • Author(s)
      須藤雄気, 井原邦夫, 小林詩織, 鈴木大介, 入枝泰樹, 菊川峰志, 神取秀樹, John L.Spudich, 本間道夫
    • Organizer
      第16回光生物学協会年会
    • Place of Presentation
      大阪府大阪市、日本
    • Year and Date
      2010-08-11
    • Related Report
      2010 Annual Research Report
  • [Presentation] Sensory signal transduction from the sensory rhodopsins to their cognate transducer proteins in microbes2010

    • Author(s)
      Sudo, Y
    • Organizer
      14th International Conference on Retinal Proteins
    • Place of Presentation
      Santa cruz, USA.
    • Year and Date
      2010-08-03
    • Related Report
      2010 Final Research Report
  • [Presentation] Sensory signal transduction from the sensory rhodopsins to their cognate transducer proteins in microbes2010

    • Author(s)
      Sudo.Y.
    • Organizer
      14th International Conference on Retinal Proteins
    • Place of Presentation
      Santa cruz, USA
    • Year and Date
      2010-08-03
    • Related Report
      2010 Annual Research Report
  • [Presentation] 微生物の走光性:センサリーロドプシンの機能理解から何がわかるか2010

    • Author(s)
      須藤雄気
    • Organizer
      何をもたらすか分子研研究会「拡がるロドプシンの仲間から"何がわかるか""何をもたらすか"」
    • Place of Presentation
      岡崎,日本
    • Year and Date
      2010-03-23
    • Related Report
      2010 Final Research Report
  • [Presentation] 北大発-アメリカ経由-名古屋行き:細菌の光応答に関する生物物理学的研究2009

    • Author(s)
      須藤雄気
    • Organizer
      生物物理学会・北海道支部講演会
    • Place of Presentation
      札幌,日本
    • Year and Date
      2009-12-21
    • Related Report
      2010 Final Research Report
  • [Presentation] 細菌の緑色光受容レセプター、センサリーロドプシンIの光エネルギー変換・情報伝達メカニズムの解析2009

    • Author(s)
      須藤雄気、本間道夫
    • Organizer
      日本生体エネルギー研究会 第35回研究会
    • Place of Presentation
      北海道旭川市
    • Year and Date
      2009-12-19
    • Related Report
      2009 Annual Research Report
  • [Presentation] Assignment of the essential Na+ binding of a stator unit for torque generation of bacterial flagellar motor by ATR-FTIR spectroscopy2009

    • Author(s)
      Sudo Y, Kitade Y, Furutani Y, Kojima M, Kojima S, Homma M, Kandori H.
    • Organizer
      The 47th annual meeting of the Biophysical Society of Japan
    • Place of Presentation
      徳島県徳島市
    • Year and Date
      2009-11-01
    • Related Report
      2009 Annual Research Report
  • [Presentation] 細菌型・緑色光認識レセプターの色認識と構造変化2009

    • Author(s)
      須藤雄気、本間道夫
    • Organizer
      第15回 光生物学協会 年会
    • Place of Presentation
      愛知県岡崎市
    • Year and Date
      2009-08-19
    • Related Report
      2009 Annual Research Report
  • [Remarks] ホームページ等

    • URL

      http://bunshi4.bio.nagoya-u.ac.jp/~bunshi4/fourth.html

    • Related Report
      2010 Final Research Report
  • [Remarks]

    • URL

      http://kenpro.mynu.jp:8001/Profiles/0054/0005480/profile.html

    • Related Report
      2010 Annual Research Report
  • [Remarks]

    • URL

      http://kenpro.mynu.jp:8001/Profiles/0054/0005480/profile.html

    • Related Report
      2009 Annual Research Report
  • [Patent(Industrial Property Rights)] アナベナセンサリーロドプシンを利用したタンパク質発現法2010

    • Inventor(s)
      須藤雄気, 入枝泰樹, 本間道夫
    • Industrial Property Rights Holder
      国立大学法人名古屋大学
    • Industrial Property Number
      2010-181053
    • Filing Date
      2010-08-12
    • Related Report
      2010 Annual Research Report 2010 Final Research Report

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Published: 2009-04-01   Modified: 2016-04-21  

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