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Structural basis and mechanism of Sec holo translocon complex

Research Project

Project/Area Number 18H02405
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Review Section Basic Section 43030:Functional biochemistry-related
Research InstitutionNara Institute of Science and Technology

Principal Investigator

Tsukazaki Tomoya  奈良先端科学技術大学院大学, 先端科学技術研究科, 教授 (80436716)

Project Period (FY) 2018-04-01 – 2021-03-31
Project Status Completed (Fiscal Year 2021)
Budget Amount *help
¥17,290,000 (Direct Cost: ¥13,300,000、Indirect Cost: ¥3,990,000)
Fiscal Year 2020: ¥5,850,000 (Direct Cost: ¥4,500,000、Indirect Cost: ¥1,350,000)
Fiscal Year 2019: ¥5,850,000 (Direct Cost: ¥4,500,000、Indirect Cost: ¥1,350,000)
Fiscal Year 2018: ¥5,590,000 (Direct Cost: ¥4,300,000、Indirect Cost: ¥1,290,000)
Keywordsタンパク質の膜透過 / 構造生物学 / 膜蛋白質 / タンパク質 / トランスロコン / protein translocation
Outline of Final Research Achievements

To unveil the essential biological processes of living organisms, it is crucial to elucidate these molecular mechanisms. Protein translocation across the membrane is a fundamental mechanism in all living cells. In a model organism, Escherichia coli, a supramolecular protein complex including the membrane protein complex SecYEG is involved in the protein translocation. In this study, we tried to elucidate the structure and function of the supramolecular protein complex by X-ray crystallography, cryo-electron microscopy, and atomic force microscopy.

Academic Significance and Societal Importance of the Research Achievements

本研究では、必須の生命現象を分子レベル、原子レベルで明らかとしようとしている。有機化合物である分子がいかに生命活動を行っていくのかについては、いまだほとんど解明されていない状況である。学術的にこれらを明らかとしていくためには一つ一つの生命現象を解き明かす必要があり、本研究を達成することで、タンパク質の膜透過という一つの生命現象の詳細な理解につながる。そのため、本研究は学術的に極めて意義深いものである。

Report

(4 results)
  • 2021 Final Research Report ( PDF )
  • 2020 Annual Research Report
  • 2019 Annual Research Report
  • 2018 Annual Research Report
  • Research Products

    (33 results)

All 2022 2021 2020 2019 2018 Other

All Int'l Joint Research (1 results) Journal Article (15 results) (of which Int'l Joint Research: 2 results,  Peer Reviewed: 14 results,  Open Access: 15 results) Presentation (13 results) (of which Int'l Joint Research: 5 results,  Invited: 4 results) Book (1 results) Remarks (3 results)

  • [Int'l Joint Research] Ajinomoto-Genetika Research Institute(ロシア連邦)

    • Related Report
      2020 Annual Research Report
  • [Journal Article] Crystal structures of a nicotine MATE transporter provide insight into its mechanism of substrate transport2021

    • Author(s)
      Tanaka Yoshiki、Iwaki Shigehiro、Sasaki Akira、Tsukazaki Tomoya
    • Journal Title

      FEBS Letters

      Volume: 595 Issue: 14 Pages: 1902-1913

    • DOI

      10.1002/1873-3468.14136

    • NAID

      120007166836

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Proton-driven bacterial protein translocation motor SecDF2020

    • Author(s)
      塚崎 智也
    • Journal Title

      生化学

      Volume: 92 Issue: 5 Pages: 717-721

    • DOI

      10.14952/SEIKAGAKU.2020.920717

    • NAID

      40022394510

    • ISSN
      0037-1017
    • Year and Date
      2020-10-25
    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Crystal structure of a YeeE/YedE family protein engaged in thiosulfate uptake2020

    • Author(s)
      Tanaka Yoshiki、Yoshikaie Kunihito、Takeuchi Azusa、Ichikawa Muneyoshi、Mori Tomoyuki、Uchino Sayaka、Sugano Yasunori、Hakoshima Toshio、Takagi Hiroshi、Nonaka Gen、Tsukazaki Tomoya
    • Journal Title

      Science Advances

      Volume: 6 Issue: 35

    • DOI

      10.1126/sciadv.aba7637

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Reversible auto-inhibitory regulation of Escherichia coli metallopeptidase BepA for selective β-barrel protein degradation.2020

    • Author(s)
      Daimon 他7名
    • Journal Title

      Proc. Natl. Acad. Sci. USA.

      Volume: 117 Issue: 45 Pages: 27989-27996

    • DOI

      10.1073/pnas.2010301117

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Structural basis of sarco/endoplasmic reticulum Ca2+-ATPase 2b regulation via transmembrane helix interplay2019

    • Author(s)
      Michio Inoue, Nanami Sakuta, Satoshi Watanabe, Yuxia Zhang, Kunihito Yoshikaie, Yoshiki Tanaka, Ryo Ushioda, Yukinari Kato, Junichi Takagi, Tomoya Tsukazaki, Kazuhiro Nagata, Kenji Inaba
    • Journal Title

      Cell Reports

      Volume: 27 Issue: 4 Pages: 1221-1230

    • DOI

      10.1016/j.celrep.2019.03.106

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Structural Basis of the Sec Translocon and YidC Revealed Through X-ray Crystallography2019

    • Author(s)
      Tsukazaki Tomoya
    • Journal Title

      The Protein Journal

      Volume: - Issue: 3 Pages: 249-261

    • DOI

      10.1007/s10930-019-09830-x

    • NAID

      120006718071

    • Related Report
      2019 Annual Research Report 2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] A snapshot of membrane protein insertion2019

    • Author(s)
      Tanaka Yoshiki、Tsukazaki Tomoya
    • Journal Title

      EMBO reports

      Volume: 20 Issue: 10

    • DOI

      10.15252/embr.201949034

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] The bacterial protein YidC accelerates MPIase-dependent integration of membrane proteins2019

    • Author(s)
      Sasaki Masaru、Nishikawa Hanako、Suzuki Sonomi、Moser Michael、Huber Maria、Sawasato Katsuhiro、Matsubayashi Hideaki T.、Kumazaki Kaoru、Tsukazaki Tomoya、Kuruma Yutetsu、Nureki Osamu、Ueda Takuya、Nishiyama Ken-ichi
    • Journal Title

      Journal of Biological Chemistry

      Volume: 294 Issue: 49 Pages: 18898-18908

    • DOI

      10.1074/jbc.ra119.011248

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Real-time observation of membrane protein-embedded nanodiscs by high-speed atomic force microscopy2019

    • Author(s)
      Takamitsu Haruyama, Tomoya Tsukazaki
    • Journal Title

      野口研究所時報

      Volume: 62 Pages: 42-49

    • NAID

      40022065376

    • Related Report
      2019 Annual Research Report
    • Open Access
  • [Journal Article] Structural basis of the function of the β-barrel assembly-enhancing protease BepA2019

    • Author(s)
      Mohammad Shahrizal, Yasushi Daimon, Yoshiki Tanaka, Yugo Hayashi, Shintaro Nakayama, Shigehiro Iwaki, Shin-ichiro Narita, Hironari Kamikubo, Yoshinori Akiyama, Tomoya Tsukazaki
    • Journal Title

      Journal of Molecular Biology

      Volume: 431 Issue: 3 Pages: 625-635

    • DOI

      10.1016/j.jmb.2018.11.024

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Single-Unit Imaging of Membrane Protein-Embedded Nanodiscs from Two Oriented Sides by High-Speed Atomic Force Microscopy2019

    • Author(s)
      Haruyama, T. Sugano, Y. Kodera, N. Uchihashi, T. Ando, T. Tanaka, Y. Konno, H. Tsukazaki, T.
    • Journal Title

      Structure

      Volume: 27 Issue: 1 Pages: 152-160

    • DOI

      10.1016/j.str.2018.09.005

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] 2.8-A crystal structure of Escherichia coli YidC revealing all core regions, including flexible C2 loop2018

    • Author(s)
      Tanaka Yoshiki、Izumioka Akiya、Abdul Hamid Aisyah、Fujii Akira、Haruyama Takamitsu、Furukawa Arata、Tsukazaki Tomoya
    • Journal Title

      Biochemical and Biophysical Research Communications

      Volume: 505 Issue: 1 Pages: 141-145

    • DOI

      10.1016/j.bbrc.2018.09.043

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Structure-based working model of SecDF, a proton-driven bacterial protein translocation factor2018

    • Author(s)
      Tsukazaki Tomoya
    • Journal Title

      FEMS Microbiology Letters

      Volume: 365 Issue: 12

    • DOI

      10.1093/femsle/fny112

    • NAID

      120006537408

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Remote Coupled Drastic β-Barrel to β-Sheet Transition of the Protein Translocation Motor.2018

    • Author(s)
      Furukawa A, Nakayama S, Yoshikaie K, Tanaka Y, Tsukazaki T.
    • Journal Title

      Structure

      Volume: 26 Issue: 3 Pages: 485-489

    • DOI

      10.1016/j.str.2018.01.002

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] タンパク質膜透過装置の構造生物学2018

    • Author(s)
      塚崎智也
    • Journal Title

      生物物理

      Volume: 58 Pages: 78-82

    • NAID

      130006594326

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Presentation] タンパク質の膜透過に関わるプロトン駆動型モーターSecDFの構造生命科学2022

    • Author(s)
      塚崎智也
    • Organizer
      第95回日本細菌学会総会
    • Related Report
      2020 Annual Research Report
    • Invited
  • [Presentation] 高速AFMによるタンパク質膜透過装置Sec複合体の動的構造解析2021

    • Author(s)
      板家成良, 長池航, 春山隆充, 市川宗厳, 菅野泰功, 宮﨑 亮次, 内橋貴之, 塚崎智也
    • Organizer
      第17回21世紀大腸菌研究会
    • Related Report
      2020 Annual Research Report
  • [Presentation] 高速原子間力顕微鏡によるタンパク質膜輸送装置Secの動態観察2021

    • Author(s)
      長池航, 板家成良, 春山隆充, 塚崎智也, 内橋貴之
    • Organizer
      令和2年度 生物物理学会中部支部
    • Related Report
      2020 Annual Research Report
  • [Presentation] 高速原子間顕微鏡による膜輸送装置Secの動態観察2020

    • Author(s)
      長池航, 板家成良, 春山 隆充, 塚崎智也, 内橋貴之
    • Organizer
      日本生体エネルギー研究会第46回討論会
    • Related Report
      2020 Annual Research Report
  • [Presentation] Observation of Substrate Binding Sec Translocon and Structural Change of SecA with HS-AFM2020

    • Author(s)
      長池 航, 春山 隆充, 塚崎智也, 内橋 貴之
    • Organizer
      The 58th Annual Meeting of the BSJ
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 硫黄トランスポーターの結晶構造解析2019

    • Author(s)
      田中良樹,吉海江国仁,内野清香,塚崎智也
    • Organizer
      第16回21世紀大腸菌研究会
    • Related Report
      2019 Annual Research Report
  • [Presentation] タンパク質膜透過チャネルSecトランスロコンを経由するタンパク質輸送のメカニズム2019

    • Author(s)
      塚崎智也
    • Organizer
      岩手大学放射光利用セミナー
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] 新奇硫黄系トランスポーターの構造と機能2019

    • Author(s)
      竹内梓, 田中良樹,吉海江 国仁, 内野清香, 高木博史, 塚﨑智也
    • Organizer
      第42回日本分子生物学会年会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Single-Unit Imaging of Membrane Protein-Embedded Nanodiscs by High-Speed Atomic Force Microscopy2019

    • Author(s)
      塚崎智也
    • Organizer
      EMBO Workshop: CURRENT ADVANCES IN PROTEIN TRANSLOCATION ACROSS MEMBRANES
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Working model of SecDF inferred from structural studies2018

    • Author(s)
      塚崎智也
    • Organizer
      Joint Symposium ~ The 10th symposium on International Collaborative Laboratories ~ BioTechnology Institute, U. Minnesota & Grad School BioScience, NAIST
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Drastic conformational changes of SecDF2018

    • Author(s)
      塚崎智也
    • Organizer
      BACTERIAL PROTEIN EXPORT 2018
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] High-speed AFM imaging of membrane protein embedded in Nanodisc2018

    • Author(s)
      塚崎智也
    • Organizer
      第56回日本生物物理学会年会
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 結晶構造解析から明らかとなってきたタンパク質膜透過モーター SecDF の劇的な構造変化2018

    • Author(s)
      塚崎智也
    • Organizer
      第18回日本蛋白質科学会年会
    • Related Report
      2018 Annual Research Report
  • [Book] 膜タンパク質工学ハンドブック2020

    • Author(s)
      監修 津本浩平・浜窪隆雄
    • Total Pages
      538
    • Publisher
      エヌ・ティー・エス
    • Related Report
      2019 Annual Research Report
  • [Remarks] 奈良先端大・構造生命科学

    • URL

      https://bsw3.naist.jp/tsukazaki/

    • Related Report
      2020 Annual Research Report
  • [Remarks] 奈良先端大 構造生命科学 研究業績

    • URL

      https://bsw3.naist.jp/tsukazaki/publication.html

    • Related Report
      2019 Annual Research Report
  • [Remarks] 構造生命科学研究室に在籍されていた古川新さんが、井上研究奨励賞を受賞

    • URL

      https://bsw3.naist.jp/research/index.php?id=1777

    • Related Report
      2018 Annual Research Report

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Published: 2018-04-23   Modified: 2023-01-30  

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