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Study of secondary structures of proteins by using hyper-Raman spectroscopy

Research Project

Project/Area Number 21K04975
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Review Section Basic Section 32010:Fundamental physical chemistry-related
Research InstitutionThe University of Tokyo

Principal Investigator

Okuno Masanari  東京大学, 大学院総合文化研究科, 准教授 (00719065)

Project Period (FY) 2021-04-01 – 2024-03-31
Project Status Completed (Fiscal Year 2023)
Budget Amount *help
¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000)
Fiscal Year 2023: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Fiscal Year 2022: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2021: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Keywords非線形分光 / ラマン分光 / 生体関連分子 / 非線形分光法 / 水素結合 / 振動分光法 / ハイパーラマン分光法 / 二次構造 / ハイパーラマン分光 / 生体分子 / 振動分光
Outline of Research at the Start

本研究は、これまで研究手法としてほとんど用いられてこなかったハイパーラマン分光法を生体関連分子へと用いることで、従来の手法では得られなかった分子科学的知見を得ることを目的とする。特にタンパク質のペプチド結合および2次構造に着目し、それらのモデル分子のハイパーラマンスペクトルから、ハイパーラマン分光に関する基礎的な知見を得ること、およびその生体関連分子への応用を目指す。

Outline of Final Research Achievements

This study aims to obtain structural information on biomolecules, including proteins, by using hyper-Raman (HR) spectroscopy, which is one of vibrational spectroscopies. First, we detected multiple amide bands originating from the peptide structure of N-methylacetamide by HR spectroscopy. Second, we characterized the secondary structures of several model peptides, whose molecular structures are well-defined, from the amide bands in the observed HR spectra. Third, we studied the hydration structures of water molecules in the vicinity of osmolytes, including urea, ter-butyl alcohol, and trimethylamine-N-oxide by HR spectroscopy. We focus on the librational bands of water originating from the hindered rotation in the low-frequency region. We show that HR spectroscopy can detect the change of the librational bands, which can be hardly detected by IR and Raman spectroscopy.

Academic Significance and Societal Importance of the Research Achievements

タンパク質などの生体分子の分子構造は、その機能を考えるうえで非常に重要である。水溶液中での構造は、生体分子が機能を発現している状態であるにもかかわらず、研究することが難しく、新たな研究手法を探求する必要がある。本研究では、非線形振動分光法の一種であり、これまでほとんど研究が行われていないハイパーラマン分光によって生体関連分子に初めて適応した。結果として、従来の分光法と同様にタンパク質の二次構造を判別できる点、従来の分光法では測定できなかった、生体関連分子による周囲の水素結合環境の変化など、新たな知見を得ることができた。このように、生体関連分子を研究する手法として、HR分光法の可能性を開拓した。

Report

(4 results)
  • 2023 Annual Research Report   Final Research Report ( PDF )
  • 2022 Research-status Report
  • 2021 Research-status Report
  • Research Products

    (20 results)

All 2024 2023 2022 2021

All Journal Article (8 results) (of which Int'l Joint Research: 3 results,  Peer Reviewed: 8 results,  Open Access: 2 results) Presentation (12 results) (of which Invited: 2 results)

  • [Journal Article] TMAO perturbs intermolecular vibrational motions of water revealed by low-frequency modes2024

    • Author(s)
      Liu Tsung-Han、Okuno Masanari
    • Journal Title

      Physical Chemistry Chemical Physics

      Volume: 26 Issue: 16 Pages: 12397-12405

    • DOI

      10.1039/d4cp01025f

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Characterization of Secondary Structures of Model Polypeptides in Solutions with Hyper-Raman Spectroscopy2023

    • Author(s)
      Liu Tsung-Han、Okuno Masanari
    • Journal Title

      The Journal of Physical Chemistry B

      Volume: 127 Issue: 30 Pages: 6675-6683

    • DOI

      10.1021/acs.jpcb.3c02101

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Is Unified Understanding of Vibrational Coupling of Water Possible? Hyper-Raman Measurement and Machine Learning Spectra2023

    • Author(s)
      Inoue Kazuki、Litman Yair、Wilkins David M.、Nagata Yuki、Okuno Masanari
    • Journal Title

      The Journal of Physical Chemistry Letters

      Volume: 14 Issue: 12 Pages: 3063-3068

    • DOI

      10.1021/acs.jpclett.3c00398

    • Related Report
      2022 Research-status Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Hyper-Raman spectroscopy of benzene and pyridine revisited2022

    • Author(s)
      Inoue Kazuki、Morimoto Tenri、Yokogawa Daisuke、Okuno Masanari
    • Journal Title

      The Journal of Chemical Physics

      Volume: 157 Issue: 5 Pages: 054505-054505

    • DOI

      10.1063/5.0099204

    • Related Report
      2022 Research-status Report
    • Peer Reviewed
  • [Journal Article] Hyper-Raman Spectroscopic Investigation of Amide Bands of <i>N</i>-Methylacetamide in Liquid/Solution Phase2021

    • Author(s)
      Asakura Masaya、Okuno Masanari
    • Journal Title

      The Journal of Physical Chemistry Letters

      Volume: 12 Issue: 20 Pages: 4780-4785

    • DOI

      10.1021/acs.jpclett.1c01215

    • Related Report
      2021 Research-status Report
    • Peer Reviewed
  • [Journal Article] Polarized Hyper-Raman Study of Cyclohexane-h<sub>12</sub> and -d<sub>12</sub> in the Liquid Phase2021

    • Author(s)
      Morimoto Tenri、Okuno Masanari
    • Journal Title

      Chemistry Letters

      Volume: 50 Issue: 8 Pages: 1512-1515

    • DOI

      10.1246/cl.210225

    • NAID

      130008072851

    • Related Report
      2021 Research-status Report
    • Peer Reviewed
  • [Journal Article] Interfacial Water Structure of Binary Liquid Mixtures Reflects Nonideal Behavior2021

    • Author(s)
      Yu Xiaoqing、Seki Takakazu、Yu Chun-Chieh、Zhong Kai、Sun Shumei、Okuno Masanari、Backus Ellen H. G.、Hunger Johannes、Bonn Mischa、Nagata Yuki
    • Journal Title

      The Journal of Physical Chemistry B

      Volume: 125 Issue: 37 Pages: 10639-10646

    • DOI

      10.1021/acs.jpcb.1c06001

    • Related Report
      2021 Research-status Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Ultrahigh Proton Conduction via Extended Hydrogen-Bonding Network in a Preyssler-Type Polyoxometalate-Based Framework Functionalized with Lanthanide Ion2021

    • Author(s)
      T. Iwano, K. Shitamatsu, N. Ogiwara, M. Okuno, Y. Kikukawa, S. Ikemoto, S. Shirai, S. Muratsugu, P. Waddell, R. J. Errington, M. Sadakane, S. Uchida
    • Journal Title

      ACS Appl. Mater. Interfaces

      Volume: 13 Issue: 16 Pages: 19138-19147

    • DOI

      10.1021/acsami.1c01752

    • Related Report
      2021 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Presentation] Hyper-Raman Spectroscopy for Characterizing Secondary Structures of Polypeptides in Aqueous Solutions2023

    • Author(s)
      Tsung-Han Liu, Masanari Okuno
    • Organizer
      第17回分子科学討論会
    • Related Report
      2023 Annual Research Report
  • [Presentation] Hyper-Raman spectroscopic study on characterization of secondary structures of model polypeptides in solutions2023

    • Author(s)
      Tsung-Han Liu, Masanari Okuno
    • Organizer
      8th Asian Spectroscopy Conference
    • Related Report
      2023 Annual Research Report
  • [Presentation] Hyper-Raman spectroscopic application in characterization of secondary structures of model polypeptides in solutions2023

    • Author(s)
      Tsung-Han Liu, Masanari Okuno
    • Organizer
      2023年度日本分光学会年次講演会
    • Related Report
      2023 Annual Research Report
  • [Presentation] Revival of hyper-Raman spectroscopy: polarization dependence and molecular structures2022

    • Author(s)
      奥野将成
    • Organizer
      2022年度日本分光学会年次講演会
    • Related Report
      2022 Research-status Report
    • Invited
  • [Presentation] ハイパーラマン分光法によるイオンの水和構造の研究2022

    • Author(s)
      井上一希、奥野将成
    • Organizer
      2022年度日本分光学会年次講演会
    • Related Report
      2022 Research-status Report
  • [Presentation] 水のハイパーラマン信号の特異な偏光依存性と非局在化した分子振動2022

    • Author(s)
      森本天麗、奥野将成
    • Organizer
      2022年度日本分光学会年次講演会
    • Related Report
      2022 Research-status Report
  • [Presentation] 井上一希、奥野将成2022

    • Author(s)
      ハイパーラマン分光法による高濃度酸水溶液の研究への応用
    • Organizer
      第16回分子科学討論会
    • Related Report
      2022 Research-status Report
  • [Presentation] 森本天麗、奥野将成2022

    • Author(s)
      液体の水の非局在化した分子振動のハイパーラマン分光による研究
    • Organizer
      第16回分子科学討論会
    • Related Report
      2022 Research-status Report
  • [Presentation] 非線形分光法でみる分子キラリティー:バルク液体から単分子膜まで2021

    • Author(s)
      奥野将成
    • Organizer
      第15回分子科学討論会
    • Related Report
      2021 Research-status Report
    • Invited
  • [Presentation] 偏光ハイパーラマン分光による液体シクロヘキサンの振動モードの帰属2021

    • Author(s)
      森本天麗、奥野将成
    • Organizer
      第15回分子科学討論会
    • Related Report
      2021 Research-status Report
  • [Presentation] ハイパーラマン分光法によるN-メチルアセトアミドのアミドバンドの研究2021

    • Author(s)
      朝倉将矢、奥野将成
    • Organizer
      第15回分子科学討論会
    • Related Report
      2021 Research-status Report
  • [Presentation] 液体状態の水のハイパーラマンスペクトルの温度および偏光依存性2021

    • Author(s)
      井上一希、奥野将成
    • Organizer
      第15回分子科学討論会
    • Related Report
      2021 Research-status Report

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Published: 2021-04-28   Modified: 2025-01-30  

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