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Folding-mechanism-based design of self-assembling channel peptides aided by molecular dynamics simulations

Research Project

Project/Area Number 17K18365
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field Bio-related chemistry
Biophysics
Research InstitutionInstitute of Physical and Chemical Research

Principal Investigator

Niitsu Ai  国立研究開発法人理化学研究所, 開拓研究本部, 基礎科学特別研究員 (10791064)

Project Period (FY) 2017-04-01 – 2021-03-31
Project Status Completed (Fiscal Year 2020)
Budget Amount *help
¥4,290,000 (Direct Cost: ¥3,300,000、Indirect Cost: ¥990,000)
Fiscal Year 2018: ¥2,730,000 (Direct Cost: ¥2,100,000、Indirect Cost: ¥630,000)
Fiscal Year 2017: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Keywords膜ペプチド / 分子動力学 / 膜タンパク質設計 / タンパク質設計 / 膜貫通ペプチド / 合成生物学 / タンパク質フォールディング / タンパク質デザイン
Outline of Final Research Achievements

This study focuses on the association mechanism of transmembrane α-helices, the most fundamental phenomenon in membrane protein folding. The assembling process of rationally designed α-helix peptides in lipid bilayers was analysed by using structural modelling and molecular dynamics simulations. Based on the simulation results, peptides with redesigned amino acid sequences were synthesised, and their experimental conditions for structural and functional analyses were optimised. The obtained results provide new insights into the interaction of the highly stable designed peptide assemblies with lipid bilayers.

Academic Significance and Societal Importance of the Research Achievements

本研究で得られた人工設計αヘリックスペプチド会合体と脂質二重膜の相互作用に関する新たな知見は、タンパク質の折り畳みを理解することに加えて未だ黎明期にある人工膜タンパク質の実現に寄与する。また新たに設計したペプチドは新規生体分子材料として利用可能であり、工学的応用を通して研究成果を社会に還元できると期待される。

Report

(5 results)
  • 2020 Annual Research Report   Final Research Report ( PDF )
  • 2019 Research-status Report
  • 2018 Research-status Report
  • 2017 Research-status Report
  • Research Products

    (8 results)

All 2021 2020 2018 2017

All Journal Article (3 results) (of which Peer Reviewed: 3 results,  Open Access: 1 results) Presentation (5 results) (of which Int'l Joint Research: 1 results,  Invited: 3 results)

  • [Journal Article] Veratridine binding to a transmembrane helix of sodium channel Nav1.4 determined by solid-state NMR2018

    • Author(s)
      Niitsu Ai、Egawa Ayako、Ikeda Keisuke、Tachibana Kazuo、Fujiwara Toshimichi
    • Journal Title

      Bioorganic & Medicinal Chemistry

      Volume: 26 Issue: 21 Pages: 5644-5653

    • DOI

      10.1016/j.bmc.2018.10.012

    • Related Report
      2018 Research-status Report
    • Peer Reviewed
  • [Journal Article] 筒形膜タンパク質を基盤とした新規ペプチドポアの設計2018

    • Author(s)
      新津 藍
    • Journal Title

      生物物理

      Volume: 58

    • NAID

      130007420497

    • Related Report
      2017 Research-status Report
    • Peer Reviewed
  • [Journal Article] 平面脂質二重膜を用いた単一チャネル電流測定法によるタンパク質・ペプチドポアのキャラクタリゼーション2017

    • Author(s)
      新津 藍
    • Journal Title

      蛋白質科学会アーカイブ

      Volume: 10

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access
  • [Presentation] De novo design of transmembrane coiled-coil peptide channels2021

    • Author(s)
      A. Niitsu, A. R. Thomson, A.J. Scott, J.T. Sengel, Y. Sugita, M.I. Wallace, H. Bayley, and D.N. Woolfson
    • Organizer
      第101回日本化学会春季年会
    • Related Report
      2020 Annual Research Report
  • [Presentation] Rational design of membrane-spanning alpha-helical peptide barrels2020

    • Author(s)
      A. Niitsu, A. R. Thomson, A.J. Scott, J.T. Sengel, Y. Sugita, M.I. Wallace, H. Bayley, and D.N. Woolfson
    • Organizer
      第58回日本生物物理学会年会
    • Related Report
      2020 Annual Research Report
    • Invited
  • [Presentation] Designing autonomous peptide-based membrane pores2017

    • Author(s)
      Niitsu A., Mahendran K.R., Thomson A. R., Session B.R., Sugita Y. Bayley H. and Woolfson D.N
    • Organizer
      Alpbach Workshop coiled-coil, fibrous and repeat proteins
    • Related Report
      2017 Research-status Report
    • Int'l Joint Research
  • [Presentation] Redesign and de novo design of transmembrane alpha-helical peptide barrels2017

    • Author(s)
      Niitsu A., Mahendran K.R., Thomson A. R., Bayley H., Sugita Y. and Woolfson D.N.
    • Organizer
      55th annual meeting of the biophysical society of Japan
    • Related Report
      2017 Research-status Report
    • Invited
  • [Presentation] Design and characterization of membrane-spanning alpha-helical peptide pores2017

    • Author(s)
      A. Niitsu, K.R. Mahendran, A. R. Thomson, H. Bayley, D.N. Woolfson, Y. Sugita
    • Organizer
      17th annual meeting of Protein Science Society of Japan
    • Related Report
      2017 Research-status Report
    • Invited

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Published: 2017-04-28   Modified: 2022-01-27  

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