Investigation of color tuning mechanism in rhodopsins and production of multi-colored pigments

2013 Fiscal Year Final Research Report

• Project/Area Number: 23657100
• Research Category: Grant-in-Aid for Challenging Exploratory Research
• Allocation Type: Multi-year Fund
• Research Field: Biophysics
• Research Institution: Nagoya University
• Principal Investigator: SUDO Yuki 名古屋大学, 理学(系)研究科(研究院), 准教授 (10452202)
• Co-Investigator(Kenkyū-buntansha): HAYASHI Shigehiko 京都大学, 大学院・理学研究科, 教授 (70402758)
• Project Period (FY): 2011 – 2013
• Keywords: 色 / タンパク質 / 光 / 実験と理論の融合

Research Abstract

Rhodopsins are known to show a large variation in their colors depending on the interaction between the apoprotein (opsin) and the retinal chromophore. In this project, we have investigated the color tuning mechanism in the rhodopsins and have also produced molecules showing a variety of colors such as blue, orange, red and purple, without loss of biological function. Thus the combination of experimental and theoretical studies could provide a useful research tool in a number of scientific fields.

Research Products

• [Journal Article] Color discriminating retinal configurations of sensory rhodopsin I by photo-irradiation solid state NMR spectroscopy (2014)
  • Author(s): Yomoda, H., Makino, Y., Tomonaga, Y., Hidaka, T., Kawamura, I., Okitsu, T., Wada, A., Sudo, Y., & Naito, A
  • Journal Title: Angew. Chem. Int. Ed Volume: (In press)
• [Journal Article] The early steps in the photocycle of a photosensor protein sensory rhodopsin I from Salinibacter ruber (2014)
  • Author(s): Sudo, Y., Mizuno, M., Wei, Z., Takeuchi, S., Tahara, T., & Mizutani, Y
  • Journal Title: J. Phys. Chem. B Volume: 118 Pages: 1510-1518
• [Journal Article] Thermal and spectroscopic characterization of a proton pumping rhodopsin from an extreme thermophile (2013)
  • Author(s): Tsukamoto, T., Inoue, K., Kandori, H., & Sudo, Y
  • Journal Title: J. Biol. Chem Volume: 288 Pages: 21581-21592
• [Journal Article] A blue-shifted light-driven proton pump for neural silencing (2013)
  • Author(s): Sudo, Y., Okazaki, A., Ono, H., Yagasaki, J., Sugo, S., Kamiya, M., Reissig, L., Inoue, K., Ihara, K., Kandori, H., Takagi, S., & Hayashi, S
  • Journal Title: J. Biol. Chem Volume: 288 Pages: 20624-20632
• [Journal Article] Investigation of the chromophore binding cavity in the 11-cis acceptable microbial rhodopsin MR (2013)
  • Author(s): Mori, A., Yagasaki, J., Homma, M., Reissig, L., & Sudo, Y
  • Journal Title: Chem. Phys Volume: 419 Pages: 23-29
• [Journal Article] Large spectral change due to amide modes of a β-sheet upon the formation of an early photointermediate of middle rhodopsin (2013)
  • Author(s): Furutani, Y., Okitsu, T., Reissig, L., Mizuno, M., Homma, M., Wada, A., Mizutani, Y., & Sudo, Y
  • Journal Title: J. Phys. Chem. B Volume: 117 Pages: 3449-3458
• [Journal Article] The influence of halide binding on the hydrogen bonding network in the active site of Salinibacter sensory rhodopsin I (2012)
  • Author(s): Reissig, L., Iwata, T., Kikukawa, T., Demura, M., Kamo, N., Kandori, H., & Sudo, Y
  • Journal Title: Biochemistry Volume: 51 Pages: 8802-8813
• [Journal Article] Photo-induced regulation of the chromatic adaptive gene expression by Anabaena sensory rhodopsin (2012)
  • Author(s): Irieda, H., Morita, T., Maki, K., Homma, M., Aiba, H., & Sudo, Y
  • Journal Title: J. Biol. Chem Volume: 287 Pages: 32485-32493
• [Journal Article] Absorption spectra and photochemical reactions in a unique photoactive protein, middle rhodopsin MR (2012)
  • Author(s): Inoue, K., Reissig, L., Sakai, M., Kobayashi, S., Homma, M., Fujii, M., Kandori, H., & Sudo, Y
  • Journal Title: J. Phys. Chem. B Volume: 116 Pages: 5888-5899
• [Journal Article] Crystal structure of the channelrhodopsin light-gated cation channel (2012)
  • Author(s): Kato HE, Zhang F, Yizhar O, Ramakrishnan C, Nishizawa T, Hirata K, Ito J, Aita Y, Tsukazaki T, Hayashi S, Hegemann P, Maturana AD, Ishitani R, Deisseroth K, Nureki O
  • Journal Title: Nature Volume: 482 Pages: 369-374
• [Journal Article] Spectral tuning in sensory rhodopsin I from Salinibacter ruber (2011)
  • Author(s): Sudo, Y., Yuasa, Y., Shibata, J., Suzuki, D., & Homma, M
  • Journal Title: J. Biol. Chem Volume: 286 Pages: 11328-11336
• [Journal Article] A microbial rhodopsin with a unique retinal composition shows both sensory rhodopsin II and bacteriorhodopsin-like properties (2011)
  • Author(s): Sudo, Y., Ihara, K., Kobayashi, S., Suzuki, D., Irieda, H., Kikukawa, T., Kandori, H., & Homma, M
  • Journal Title: J. Biol. Chem Volume: 286 Pages: 5967-5976
• [Journal Article] Structural characteristics around the b-Ionone ring of the retinal chromophore in Salinibacter sensory rhodopsin I (2011)
  • Author(s): Irieda, H., Reissig, L., Kawanabe, A., Homma, M., Kandori, H., & Sudo, Y
  • Journal Title: Biochemistry Volume: 50 Pages: 4912-4922
• [Journal Article] Functional expression of a two-transmembrane HtrII protein using cell-free synthesis (2011)
  • Author(s): Sudo, Y., Tanaka, R., Kobayashi, T., Kamo, N., Kohno, T., & Kojima, C
  • Journal Title: Biophysics Volume: 7 Pages: 51-58
• [Presentation] Photobiophysical chemistry : What should we learn from retinal proteins? (2014)
  • Author(s): Sudo, Y
  • Organizer: iCeMS symposium on Mesoscopic Chemical Biology : Integrated Chemical-Physical Systems Towards Cell Control
  • Place of Presentation: Kyoto, Japan
  • Year and Date: 2014-02-02
• [Presentation] 光操作技術の基盤となるロドプシン分子の多様性と可能性 (2012)
  • Author(s): 須藤雄気
  • Organizer: 第7回・NIBB バイオイメージングフォーラム
  • Place of Presentation: 基礎生物学研究所
  • Year and Date: 2012-11-26
• [Presentation] 分子からのボトムアップ研究で拓く光細胞・個体操作 (2012)
  • Author(s): 須藤雄気
  • Organizer: 「細胞を創る」研究会5.0
  • Place of Presentation: 東京工業大学
  • Year and Date: 2012-11-21
• [Presentation] Functional diversity of sensory rhodopsins from microbes (2012)
  • Author(s): Sudo, Y
  • Organizer: 15th International Conference on Retinal Proteins
  • Place of Presentation: Ascona, Switzerland
  • Year and Date: 2012-09-30
• [Presentation] 「Simple is the first?」 : 微生物由来レチナール蛋白質の分子進化と多様性 (2012)
  • Author(s): 須藤雄気
  • Organizer: 第14回日本進化学会年会(シンポジウム)
  • Place of Presentation: 八王子
  • Year and Date: 2012-08-21
• [Presentation] 色付きタンパク質の生物学的・化学的・物理学的研究の"面白さ"と"奥深さ" (2012)
  • Author(s): 須藤雄気
  • Organizer: 第1回超異分野学会
  • Place of Presentation: 東京
  • Year and Date: 2012-03-17
• [Presentation] Molecular and evolutionary aspects of microbial sensory rhodopsin (2011)
  • Author(s): Sudo, Y. & Homma, M
  • Organizer: 5th Asia and Oceania Conference for Photobiology (AOCP)
  • Place of Presentation: Nara, Japan
  • Year and Date: 20110931
• [Book] "Molecular and evolutionary aspects of microbial sensory rhodopsins" Biochim. Biophys. Acta (2014)
  • Author(s): Inoue, K., Tsukamoto, T., & Sudo, Y
  • Total Pages: 562-577(1837)
• [Book] "ロドプシンの波長制御と光情報変換機構" オプトジェネティクス~光工学と遺伝学による行動制御技術の最前線~, 第2章 4節 (2013)
  • Author(s): 須藤雄気
  • Total Pages: 79-91
• [Book] "Transport and sensory rhodopsins in microorganisms" CRC Handbook of Organic Photochemistry and Photobiology, the 3rd edition (2012)
  • Author(s): Sudo, Y
  • Total Pages: 1173-1193
  • Publisher: CRC Press, Boca Raton
• [Book] "光受容タンパク質による微生物の光センシングの理解とその利用" 薬学雑誌 (2012)
  • Author(s): 須藤雄気, 本間道夫
  • Total Pages: 407-416(132)
• [Book] "高度好塩性微生物の"目" : センサリーロドプシンへの Cl-イオン結合の役割" 極限環境微生物学会誌 (2011)
  • Author(s): 須藤雄気, 井原邦夫, 本間道夫, 加茂直樹
  • Total Pages: 23-29(10)
• [Remarks]
  • URL: http://scholar.google.com/citations?hl=en&user=TJ6GZQsAAAAJ&view_op=list_works