Study of picosecond-timescale fluctuation of water molecules around proteins

• Project/Area Number: 21740313
• Research Category: Grant-in-Aid for Young Scientists (B)
• Allocation Type: Single-year Grants
• Research Field: Biophysics/Chemical physics
• Research Institution: Nara Institute of Science and Technology
• Principal Investigator: YAMAGUCHI Mariko Nara Institute of Science and Technology, 物質創成科学研究科, 助教 (50521738)
• Project Period (FY): 2009 – 2010
• Project Status: Completed (Fiscal Year 2010)
• Budget Amount: ¥4,550,000 (Direct Cost: ¥3,500,000、Indirect Cost: ¥1,050,000); Fiscal Year 2010: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000); Fiscal Year 2009: ¥3,250,000 (Direct Cost: ¥2,500,000、Indirect Cost: ¥750,000)
• Keywords: テラヘルツ / タンパク質 / 水和

Research Abstract

Water is important for proteins because it stabilizes protein structure and also makes proteins active. Water fluctuation needs to be clarified in order to understand the mechanisms of protein function. In this work water fluctuation around proteins has been studied by using terahertz time-domain spectroscopy. Water molecules tightly bound to proteins do not change protein modes so much but move together with proteins. Water molecules need to form hydrogen network to attain large fluctuation.

Research Products

• [Journal Article] Systematic alanine insertion reveals the essential regions that encode structure formation and activity of dihydrofolate reductase (2011)
  • Author(s): Rumi Shiba, Mika Umeyama, Sayaka Tsukasa, Hironari Kamikubo, Yoichi Yamazaki, Mariko Yamaguchi, Masahiro Iwakura, Mikio Kataoka.
  • Journal Title: Biophysics 7 Pages: 1-10
  • NAID: 130000406413
  • Peer Reviewed
• [Journal Article] Systematic alanine insertion reveals the essential regions that encode structure formation and activity of dihydrofolate reductase (2011)
  • Author(s): Rumi Shiba, Mika Umeyama, Sayaka Tsukasa, Hironari Kamikubo, Yoichi Yamazaki, Mariko Yamaguchi, Masahiro Iwakura, Mikio Kataoka
  • Journal Title: Biophysics Volume: 7 Pages: 1-10
  • NAID: 130000406413
  • Peer Reviewed
• [Journal Article] Discrimination of Inflammable Liquids by Two-Dimensional Mapping of Complex Refractive Indices in the Terahertz Range. (2010)
  • Author(s): Mariko Yamaguchi, Takeshi Ikeda, Kohji Yamamoto, Akira Matsushita, Michiaki Tatsuno, Yukio Minami, Masahiko Tani, Masahiko Hangyo.
  • Journal Title: Japanese Journal of Applied Physics 49
  • NAID: 40017341214
  • Peer Reviewed
• [Journal Article] Time-Domain Coherent Anti-Stokes Raman Scattering Signal Detection for Terahertz Vibrational Spectroscopy Using Chirped Femtosecond Pulses (2010)
  • Author(s): Masahiko Tani, Toshiyuki Koizumi, Hisashi Sumikura, Mariko Yamaguchi, Kohji Yamamoto, Masanori Hangyo.
  • Journal Title: Applied Physics Express 10
  • NAID: 10026495288
  • Peer Reviewed
• [Journal Article] Time-Domain Coherent Anti-Stokes Raman Scattering Signal Detection for Terahertz Vibrational Spectroscopy Using Chirped Femtosecond Pulses (2010)
  • Author(s): Masahiko Tani, Toshiyuki Koizumi, Hisashi Sumikura, Mariko Yamaguchi, Kohji Yamamoto, Masanori Hangyo
  • Journal Title: Applied Physics Express Volume: 10
  • NAID: 10026495288
  • Peer Reviewed
• [Journal Article] Discrimination of Inflammable Liquids by Two-Dimensional Mapping of Complex Refractive Indices in the Terahertz Range (2010)
  • Author(s): Mariko Yamaguchi, Takeshi Ikeda, Kohji Yamamoto, Akira Matsushita, Michiaki Tatsuno, Yukio Minami, Masahiko Tani, Masanori Hangyo
  • Journal Title: Japanese Journal of Applied Physics Volume: 49
  • NAID: 40017341214
  • Peer Reviewed
• [Presentation] FRET analysis of structural changes in staphylococcal nuclease. (2010)
  • Author(s): Yusuke Kishi, Takuya Muto, Mariko Yamaguchi, Issei Iijima, Yoichi Yamazaki, Hironari Kamikubo, Takahiro Hohsaka, Mikio Kataoka.
  • Organizer: The 4th International Symposium "Molecuar Science of Fluctuations toward Biological Functions
  • Place of Presentation: Otsu, Japan
  • Year and Date: 2010-12-01
• [Presentation] FRET analysis of structural changes in staphylococcal nuclease (2010)
  • Author(s): Y.Kishi, T.Muto, M.Yamaguchi, I.Iijima, Y.Yamazaki, H.Kamikubo, T.Hohsaka, M.Kataoka
  • Organizer: The 4th International Symposium "Molecuar Science of Fluctuations toward Biological Functions"
  • Place of Presentation: Otsu, Japan
  • Year and Date: 2010-12-01
• [Presentation] Measurements of loop formation in the denatured state of staphylococcal nuclease (2010)
  • Author(s): Mariko Yamaguchi, Yoichi Yamazaki, Hironari Kamikubo, Mikio Kataoka.
  • Organizer: The 4th International Symposium "Molecuar Science of Fluctuations toward Biological Functions
  • Place of Presentation: Otsu, Japan.
  • Year and Date: 2010-11-30
• [Presentation] Measurements of loop formation in the denatured state of staphylococcal nuclease (2010)
  • Author(s): M.Yamaguchi, Y.Yamazaki, H.Kamikubo, M.Kataoka
  • Organizer: The 4th International Symposium "Molecuar Science of Fluctuations toward Biological Functions"
  • Place of Presentation: Otsu, Japan
  • Year and Date: 2010-11-30
• [Presentation] FRET analysis of Staphylococcal nuclease structural changes (2010)
  • Author(s): Yusuke Kishi, Mariko Yamaguchi, Issei Iijima, Yoichi Yamazaki, Hironari Kamikubo, Takahiro Hohsaka, Mikio Kataoka.
  • Organizer: 日本生物物理学会第48回年会
  • Place of Presentation: Sendai, Japan.
  • Year and Date: 2010-09-22
• [Presentation] FRET analysis of Staphylococcal nuclease structural changes (2010)
  • Author(s): Yusuke Kishi, Mariko Yamaguchi, Issei Iijima, Yoichi Yamazaki, Hironari Kamikubo, Takahiro Hohsaka, Mikio Kataoka
  • Organizer: 日本生物物理学会第48回年会
  • Place of Presentation: 東北大学川内キャンパス
  • Year and Date: 2010-09-22
• [Presentation] Urea denaturation of staphylococcal nuclease monitored by tryptophan-cysteine distance (2010)
  • Author(s): Mariko Yamaguchi, Yoichi Yamazaki, Hironari Kamikubo, Mikio Kataoka.
  • Organizer: 日本生物物理学会第48回年会
  • Place of Presentation: Sendai, Japan.
  • Year and Date: 2010-09-20
• [Presentation] Urea denaturation of staphylococcal nuclease monitored by tryptophan-cysteine distance (2010)
  • Author(s): Mariko Yamaguchi, Yoichi Yamazaki, Hironari Kamikubo, Mikio Kataoka
  • Organizer: 日本生物物理学会第48回年会
  • Place of Presentation: 東北大学川内キャンパス
  • Year and Date: 2010-09-20
• [Presentation] Local Structure Characterization of Staphylococcal Nuclease by Lifetime measurement of tryptophan triplet state, The 3rd International Symposium (2009)
  • Author(s): Mariko Yamaguchi, Yoichi Yamazaki, Hironari Kamikubo, Mikio Kataoka.
  • Organizer: Molecular Science of Fluctuations toward Biological Functions
  • Place of Presentation: Nagoya, Japan
  • Year and Date: 2009-12-21
• [Presentation] Two-dimensional mapping of refractive indices for discrimination of inflammable liquids (2009)
  • Author(s): Mariko Yamaguchi, Takeshi Ikeda, Kohji Yamamoto, Akira Matsushita, Michiaki Tatsuno, Yukio Minami, Masahiko Tani, Masanori Hangyo.
  • Organizer: International Symposium on Frontier of Terahertz Spectroscopy III -Next generation technology in THz frequency region and its application to THz sensitive spectroscopy and sensing-
  • Place of Presentation: Fukui, Japan.
  • Year and Date: 2009-10-23
• [Presentation] Two-dimensional mapping of refractive indices for discrimination of inflammable liquids (2009)
  • Author(s): Mariko Yamaguchi, Takeshi Ikeda, Kohji Yamamoto, Akira Matsushita, Michiaki Tatsuno, Yukio Minami, Masahiko Tani, Masanori Hangyo
  • Organizer: International Symposium on Frontier of Terahertz Spectroscopy III -Next generation technology in THz frequency region and its application to THz sensitive spectroscopy and sensing-
  • Place of Presentation: 福井大学文京キャンパス
  • Year and Date: 2009-10-23