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Structural and biochemical analysis of Sec translocon machinery

Research Project

Project/Area Number 21770135
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeSingle-year Grants
Research Field Functional biochemistry
Research InstitutionThe University of Tokyo

Principal Investigator

TSUKAZAKI Tomoya  東京大学, 大学院・理学系研究科, 助教 (80436716)

Project Period (FY) 2009 – 2011
Project Status Completed (Fiscal Year 2011)
Budget Amount *help
¥4,550,000 (Direct Cost: ¥3,500,000、Indirect Cost: ¥1,050,000)
Fiscal Year 2011: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2010: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2009: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Keywordsタンパク質 / 膜透過 / 膜タンパク質 / 膜組込 / トランスロコン / Sec / 構造解析 / 構造生物学 / 蛋白質 / トランスコロン / 膜蛋白質
Research Abstract

Transport of proteins across membranes is one of the fundamental and essential cellular activities in all organisms. We solved the first 3D structure of a membrane component SecDF, which plays an important role in efficient translocation of newly synthesized proteins across the membrane in bacteria. From the structural features and functional analyses, we proposed that SecDF functions as a membrane-integrated chaperone, which drives movement of proteins without using a major currency, ATP, of energy, but with remarkable cycles of conformational changes, powered by a proton H+ion) gradient across the membrane. Our model of the SecDF function has been verified by a series of biochemical and biophysical approaches. This research uncovers a new, atomic-level principle that underlies the cellular protein delivery systems in particular and biological mechanisms of active transport in general, by which cells acquire or dispose not only macromolecules but also ions, drugs and nutrients.

Report

(4 results)
  • 2011 Annual Research Report   Final Research Report ( PDF )
  • 2010 Annual Research Report
  • 2009 Annual Research Report
  • Research Products

    (40 results)

All 2012 2011 2010 2009 Other

All Journal Article (18 results) (of which Peer Reviewed: 8 results) Presentation (18 results) Remarks (4 results)

  • [Journal Article] Crystal structure of the channelrhodopsin light-gated cation channel2012

    • Author(s)
      Hideaki E.Kato, Feng Zhang, Ofer Yizhar, Charu Ramakrishnan, Tomohiro Nishizawa, Kunio Hirata, Jumpei Ito, Yusuke Aita, Tomoya Tsukazaki, Shigehiko Hayashi, Peter Hegemann, Andres D.Maturana, Ryuichiro Ishitani, Karl Deisseroth, Osamu Nureki
    • Journal Title

      Nature

      Volume: 482 Issue: 7385 Pages: 369-374

    • DOI

      10.1038/nature10870

    • Related Report
      2011 Annual Research Report 2011 Final Research Report
    • Peer Reviewed
  • [Journal Article] tructure and function of SecDF, a protein export-enhancing membrane component2011

    • Author(s)
      Tsukazaki, T., et al
    • Journal Title

      Nature

      Volume: 475 Issue: 7350 Pages: 235-238

    • DOI

      10.1038/nature09980

    • Related Report
      2011 Annual Research Report 2011 Final Research Report
    • Peer Reviewed
  • [Journal Article] The mechanism of protein export enhancement by the SecDF membrane component2011

    • Author(s)
      Tsukazaki, T. and Nureki, O
    • Journal Title

      BIOPHYSICS

      Volume: 7 Pages: 129-133

    • NAID

      130001253088

    • URL

      https://www.jstage.jst.go.jp/article/biophysics/7/0/7_0_129/_article

    • Related Report
      2011 Annual Research Report 2011 Final Research Report
  • [Journal Article] Crystallization and preliminary X-ray diffraction of the first periplasmic domain of SecDF, a translocon-associated membrane protein, from Thermus thermophilus2011

    • Author(s)
      Echizen, Y., Tsukazaki, T., Dohmae, N., Ishitani, R. and Nureki, O
    • Journal Title

      Acta. Crystallograph. Sect. F Struct. Biol. Cryst. Commun

      Volume: 67 Pages: 1367-1370

    • URL

      http://scripts.iucr.org/cgi-bin/paper?S1744309111031885

    • Related Report
      2011 Final Research Report
  • [Journal Article] Secトランスロコンと共に機能するSecDF膜タンパク質の構造2011

    • Author(s)
      塚崎智也
    • Journal Title

      生物物理

      Volume: 51 Pages: 236-237

    • NAID

      10029482527

    • URL

      http://www.biophys.jp/journal/journal_vollist.php

    • Related Report
      2011 Annual Research Report 2011 Final Research Report
  • [Journal Article] タンパク質を膜透過させる分子装置2011

    • Author(s)
      塚崎智也, 濡木理
    • Journal Title

      化学工業

      Volume: 62 Pages: 474-477

    • NAID

      40018847354

    • URL

      http://www.kako-sha.co.jp/

    • Related Report
      2011 Annual Research Report 2011 Final Research Report
  • [Journal Article] Crystallization and preliminary X-ray diffraction of the first periplasmic domain of SecDF, a translocon-associated membrane protein, from Thermus thermophilus2011

    • Author(s)
      越前友香, 他3名
    • Journal Title

      Acta.Crystallograph.Sect.F Struct.Biol.Cryst.Commun.

      Volume: 67 Pages: 1367-1370

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Molecular mechanisms underlying the early stage of protein translocation through the Sec translocon2010

    • Author(s)
      Mori, T., Ishitani, R., Tsukazaki, T., Nureki, O. and Sugita, Y
    • Journal Title

      Biochemistry

      Volume: 49 Pages: 945-950

    • URL

      http://pubs.acs.org/doi/abs/10.1021/bi901594w

    • Related Report
      2011 Final Research Report
  • [Journal Article] 結晶化用蛋白質の精製法~SecDF膜蛋白質をモデルとして~2010

    • Author(s)
      塚崎智也
    • Journal Title

      蛋白質科学会アーカイブ3

      Volume: e056

    • URL

      http://www.pssj.jp/archives/Protocol/Purification/cryst_03/cryst_03_01.html

    • Related Report
      2011 Final Research Report
  • [Journal Article] Conformational Transition of Sec Machinery Inferred from Bacterial SecYE Structures2010

    • Author(s)
      塚崎智也
    • Journal Title

      Spring-8 Research Frontiers 2009

      Pages: 30-31

    • NAID

      10025975982

    • Related Report
      2010 Annual Research Report
  • [Journal Article] 結晶化用膜蛋白質の精製法~SecDF膜蛋白質をモデルとして~2010

    • Author(s)
      塚崎智也
    • Journal Title

      蛋白質科学会アーカイブ 3

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Molecular mechanisms underlying the early stage of protein translocation through the Sec translocon2010

    • Author(s)
      森貴治
    • Journal Title

      Biochemistry 49

      Pages: 945-950

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Mg^<2+>-dependent gating ofbacterial MgtE channel underlies Mg^<2+> homeostasis2009

    • Author(s)
      Hattori, M., Iwase, N., Furuya, N., Tanaka, Y., Tsukazaki, T., Ishitani, R., Maguire, M. E., Ito, K. and Nureki, O
    • Journal Title

      EMBO J

      Volume: 28 Pages: 3602-361

    • URL

      http://www.nature.com/emboj/jurnal/v28/n22/abs/emboj2009288a.html

    • Related Report
      2011 Final Research Report
  • [Journal Article] 細菌型Secトランスロコンの構造から明らかとなったタンパク2009

    • Author(s)
      塚崎智也, 森博幸
    • Journal Title

      質膜透過装置の構造変化生物物理

      Volume: 49 Pages: 288-289

    • URL

      http://www.biophys.jp/journal/journal_vollist.php

    • Related Report
      2011 Final Research Report
  • [Journal Article] 立体構造解析からみえてきたSecAによる蛋白質の膜透過の駆動機構2009

    • Author(s)
      森博幸, 塚崎智也
    • Journal Title

      蛋白質核酸酵素

      Volume: 54 Pages: 685-695

    • NAID

      40016639055

    • Related Report
      2011 Final Research Report
  • [Journal Article] 細菌型Secトランスロコンの構造から明らかとなったタンパク質膜透過装置の構造変化2009

    • Author(s)
      塚崎智也
    • Journal Title

      生物物理 49

      Pages: 288-289

    • NAID

      10025975982

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] 立体構造解析からみえてきたSecAによる蛋白質の膜透過の駆動機構2009

    • Author(s)
      森博幸
    • Journal Title

      蛋白質核酸酵素 54

      Pages: 685-695

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Mg^<2+>-dependent gating of bacterial MgtE channel underlies Mg^<2+> homeostasis2009

    • Author(s)
      服部素之
    • Journal Title

      EMBO J. 28

      Pages: 3602-3612

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Presentation] Structure and function of a membrane component SecDF that enhances protein export2012

    • Author(s)
      塚崎智也
    • Organizer
      Gordon Conference on Protein Transport Across Cell Membranes
    • Place of Presentation
      ホテルガルベス(テキサス州アメリカ合衆国)
    • Year and Date
      2012-03-12
    • Related Report
      2011 Annual Research Report 2011 Final Research Report
  • [Presentation] タンパク質の膜透過を促進する膜タンパク質SecDFの構造と機能2011

    • Author(s)
      塚崎智也
    • Organizer
      過渡的複合体公開シンポジウム
    • Place of Presentation
      東京大学薬学部(東京都)
    • Year and Date
      2011-07-21
    • Related Report
      2011 Final Research Report
  • [Presentation] タンパク質の膜透過を促進する膜タンパク質SecDFの構造と機能2011

    • Author(s)
      塚崎智也
    • Organizer
      「過渡的複合体」公開シンポジウム
    • Place of Presentation
      東京大学薬学部(東京都)(招待講演)
    • Year and Date
      2011-07-21
    • Related Report
      2011 Annual Research Report
  • [Presentation] Structure, function and evolution of the bacterial protein translocation machinery2010

    • Author(s)
      森博幸
    • Organizer
      BMB2010
    • Place of Presentation
      神戸ポートアイランド(兵庫県)
    • Year and Date
      2010-12-10
    • Related Report
      2010 Annual Research Report
  • [Presentation] Secトランスロコンと共に機能するSecDF膜タンパク質の構造2010

    • Author(s)
      塚崎智也
    • Organizer
      第48回日本生物物理学会年会
    • Place of Presentation
      東北大学川内キャンパス(宮城県)
    • Year and Date
      2010-09-20
    • Related Report
      2011 Final Research Report 2010 Annual Research Report
  • [Presentation] Crystal structure of SecDF, a Sec translocon-associated membrane protein2010

    • Author(s)
      塚崎智也
    • Organizer
      The 3rd International Symposium on Protein Community
    • Place of Presentation
      ホテル日航奈良(奈良県)
    • Year and Date
      2010-09-14
    • Related Report
      2011 Final Research Report 2010 Annual Research Report
  • [Presentation] Crystallization trial of SecDF in space2010

    • Author(s)
      今吉啓一
    • Organizer
      The 3rd International Symposium on Protein Community
    • Place of Presentation
      ホテル日航奈良(奈良県)
    • Year and Date
      2010-09-13
    • Related Report
      2010 Annual Research Report
  • [Presentation] Purification and crystallization of Thermus thermophilus SecYEG2010

    • Author(s)
      鹿島絢子
    • Organizer
      The 3rd International Symposium on Protein Community
    • Place of Presentation
      ホテル日航奈良(奈良県)
    • Year and Date
      2010-09-13
    • Related Report
      2010 Annual Research Report
  • [Presentation] Secトランスロコンと共に機能するSecDF膜蛋白質の結晶構造2010

    • Author(s)
      塚崎智也
    • Organizer
      第10回日本蛋白質科学会年会
    • Place of Presentation
      札幌コンベンションセンター(北海道)
    • Year and Date
      2010-06-18
    • Related Report
      2010 Annual Research Report
  • [Presentation] Structural Analysis of Bacterial Sec Translocon Machinery2010

    • Author(s)
      塚崎智也
    • Organizer
      International Symposium : Fifty Years of Biophysics Research at Nagoya University
    • Place of Presentation
      名古屋大学(愛知県)
    • Year and Date
      2010-03-14
    • Related Report
      2011 Final Research Report
  • [Presentation] Structural Analysis of Bacterial Sec Translocon Machinery2010

    • Author(s)
      塚崎智也
    • Organizer
      International Symposium : Fifty Years of Biophysics Research at Nagoya University
    • Place of Presentation
      名古屋
    • Year and Date
      2010-03-14
    • Related Report
      2009 Annual Research Report
  • [Presentation] Structural analysis of bacterial Sec translocon machinery2010

    • Author(s)
      塚崎智也
    • Organizer
      Gordon Research Conferences : Protein Transport Across Cell Membranes
    • Place of Presentation
      ホテルガルベス(テキサス州アメリカ合衆国)
    • Year and Date
      2010-03-11
    • Related Report
      2011 Final Research Report
  • [Presentation] Structural analysis of bacterial Sec translocon machinery2010

    • Author(s)
      塚崎智也
    • Organizer
      Gordon Research Conferences : Protein Transport Across Cell Membranes
    • Place of Presentation
      アメリカ合衆国・ガルベストン
    • Year and Date
      2010-03-11
    • Related Report
      2009 Annual Research Report
  • [Presentation] Structural Analysis of Bacterial Sec Translocon machinery2009

    • Author(s)
      塚崎智也
    • Organizer
      International Symposium : Innovative Nanoscience of Supermolecular Motor Proteins Working in Biomembranes
    • Place of Presentation
      京都大学(京都府)
    • Year and Date
      2009-09-08
    • Related Report
      2011 Final Research Report
  • [Presentation] Structural Analysis of Bacterial Sec Translocon machinery2009

    • Author(s)
      塚崎智也
    • Organizer
      International Symposium : Innovative Nanoscience of Supermolecular Motor Proteins Working in Biomembranes
    • Place of Presentation
      京都
    • Year and Date
      2009-09-08
    • Related Report
      2009 Annual Research Report
  • [Presentation] Conformational transition of Sec machinery inferred from bacterial SecYE structures2009

    • Author(s)
      塚崎智也
    • Organizer
      VIII European Symposium of The Protein Society
    • Place of Presentation
      スイス・チューリッヒ
    • Year and Date
      2009-06-16
    • Related Report
      2009 Annual Research Report
  • [Presentation] 細菌型Secトランスロコンの構造から明らかとなったタンパク質膜透過装置の構造変化2009

    • Author(s)
      塚崎智也
    • Organizer
      第9回日本蛋白質科学会年会
    • Place of Presentation
      全日空ホテルニュースカイ(熊本県)
    • Year and Date
      2009-05-21
    • Related Report
      2011 Final Research Report
  • [Presentation] 細菌型Secトランスロコンの構造から明らかとなったタンパク質膜透過装置の構造変化2009

    • Author(s)
      塚崎智也
    • Organizer
      第9回日本蛋白質科学会年会
    • Place of Presentation
      熊本
    • Year and Date
      2009-05-21
    • Related Report
      2009 Annual Research Report
  • [Remarks]

    • URL

      http://www.s.u-tokyo.ac.jp/ja/press/2011/10.html

    • Related Report
      2011 Final Research Report
  • [Remarks]

    • URL

      http://first.lifesciencedb.jp/archives/2915

    • Related Report
      2011 Final Research Report
  • [Remarks]

    • URL

      http://first.lifesciencedb.jp/archives/2915

    • Related Report
      2011 Annual Research Report
  • [Remarks]

    • URL

      http://www.s.u-tokyo.ac.jp/ja/press/2011/10.html

    • Related Report
      2011 Annual Research Report

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

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