Structural biology of oxygen-evolving photosystem II

• Project/Area Number: 24687006
• Research Category: Grant-in-Aid for Young Scientists (A)
• Allocation Type: Partial Multi-year Fund
• Research Field: Plant molecular biology/Plant physiology
• Research Institution: Osaka City University
• Principal Investigator: Kawakami Keisuke 大阪市立大学, 複合先端研究機構, 特任准教授 (40619904)
• Project Period (FY): 2012-04-01 – 2016-03-31
• Project Status: Completed (Fiscal Year 2015)
• Budget Amount: ¥16,640,000 (Direct Cost: ¥12,800,000、Indirect Cost: ¥3,840,000); Fiscal Year 2015: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000); Fiscal Year 2014: ¥2,600,000 (Direct Cost: ¥2,000,000、Indirect Cost: ¥600,000); Fiscal Year 2013: ¥2,730,000 (Direct Cost: ¥2,100,000、Indirect Cost: ¥630,000); Fiscal Year 2012: ¥9,750,000 (Direct Cost: ¥7,500,000、Indirect Cost: ¥2,250,000)
• Keywords: 光化学系II / 酸素発生反応 / 酸素発生中心 / ヨウ素イオン / 還元反応 / 色素・光合成 / 色素体機能・光合成

Outline of Final Research Achievements

Plants and cyanobacteria form oxygen molecules required for life on the earth. Tis reaction is performed by light-induced electron transfer and water-splitting reaction of oxygen-evolving center, the so-called Mn4CaO5-cluster in photosystem II (PSII). The chloride ion (Cl-) in PSII is known to be an essential co-factor in the water-splitting reaction, however, the reaction is inhibited when Cl- is replaced with iodine ion (I-). We analyzed the crystal structure of iodine-substituted PSII (I-PSII) to elucidate the inhibition mechanism of the water-splitting reaction by I- and the associated structural changes of the Mn4CaO5-cluster. In this study, we conformed the dynamic structural changes in the Mn4CaO5-cluster and reduction reaction of the cluster upon I- substitution.

Research Products

• [Journal Article] Identification of β-Cryptoxanthin in Oxygen-Evolving Photosystem II from Thermosynechococcus vulcanus (2014)
  • Author(s): Keisuke Kawakami, Ritsuko Fujii, Yasufumi Umena, Shin-ichiro Ozawa, Yuichiro Takahashi, Hideki Hashimoto, Jian-Ren Shen, and Nobuo Kamiya
  • Journal Title: Carotenoid Science Volume: 19 Pages: 48-51
  • Peer Reviewed
• [Journal Article] Generalized approximate spin projection calculations of effective exchange integrals of the CaMn405 cluster in the S1 and S3 states of oxygen evolving complex of photosystem II (2014)
  • Author(s): H. Isobe, M. Shoji, S. Yamanaka, H. Mino, Y. Umena, K. Kawakami, N. Kamiya, J.-R. Shen, and K. Yamaguchi
  • Journal Title: Physical Chemistry Chemical Physics Volume: 16 Issue: 24 Pages: 11911-11923
  • DOI: 10.1039/c4cp00282b
  • Peer Reviewed / Open Access
• [Journal Article] The Nature of chemical bonds of the CaMn4O5cluster in oxygen evolving complex of photosystem II. Jahn-Teller distortion and its suppression by Ca doping in cubane structures (2013)
  • Author(s): K. Yamaguchi, S. Yamanaka, H. Isobe, T. Saito, K. Kanda, Y. Umena, K. Kawakami, J. -R. Shen, N. Kamiya, M. Okumura, H. Nakamura, M. Shoji and Y. Yoshioka
  • Journal Title: Internat. J. Quantum Chem Volume: 113 Issue: 4 Pages: 453-473
  • DOI: 10.1002/qua.24280
  • Peer Reviewed
• [Journal Article] Full Geometry Optimizations of the Mixed-Valence CaMn4O4X(H2O) 4 (X=OH or O) Cluster in OEC of PS II: Degree of Symmetry Breaking of the Labile Mn-X-Mn Bond Revealed by Several Hybrid DFT Calculations (2013)
  • Author(s): K. Yamaguchi, H. Isobe, S. Yamanaka, T. Saito, K. Kanda, M. Shoji, Y. Umena, K. Kawakami, J.-R.. Shen, N. Kamiya, M. Okumura
  • Journal Title: International Journal of Quantum Chemistry Volume: 113 Issue: 4 Pages: 525-541
  • DOI: 10.1002/qua.24117
  • Peer Reviewed
• [Journal Article] Structure of Sr-substituted photosystem II at 2.1 Å resolution and its implications in the mechanism of water oxidation (2013)
  • Author(s): Faisal Hammad Mekky Koua, Yasufumi Umena, Keisuke Kawakami, Jian-Ren Shen
  • Journal Title: Proc. Natl. Acad. Sci. USA Volume: 110 Issue: 10 Pages: 3889-3894
  • DOI: 10.1073/pnas.1219922110
  • Peer Reviewed
• [Journal Article] Photosystem II does not possess a simple excitation energy funnel: Time-resolved fluorescence spectroscopy meets theory (2013)
  • Author(s): Yutaka Shibata, Shunsuke Nishi, Keisuke Kawakami, Jian-Ren Shen, Thomas Renger
  • Journal Title: J. Am. Chem. Soc. Volume: - Issue: 18 Pages: 6903-6914
  • DOI: 10.1021/ja312586p
  • Peer Reviewed
• [Journal Article] Applications of Peptide Gemini Surfactants as Solubilization Surfactants for Photosystems I and II of Cyanobacteria (2013)
  • Author(s): Shuhei Koeda, Katsunari Umezaki, Tomoyasu Noji, Atsushi Ikeda, Keisuke Kawakami, Masaharu Kondo, Yasushi Yamamoto, Jian-Ren Shen, Keijiro Taga, Takehisa Dewa, Mamoru Nango, Toshiki Tanaka, Toshihisa Mizuno
  • Journal Title: Langmuir Volume: 29 Issue: 37 Pages: 11667-11680
  • DOI: 10.1021/la402167v
  • Peer Reviewed
• [Journal Article] Evidence for an Unprecedented Histidine Hydroxyl Modification on D2-His336 in Photosystem II of Thermosynechoccocus vulcanus and Thermosynechoccocus elongatus (2013)
  • Author(s): Miwa Sugiura, Kazumi Koyama, Yasufumi Umena, Keisuke Kawakami, Jian-Ren Shen, Nobuo Kamiya, Alain Boussac
  • Journal Title: Biochemistry Volume: 52 Issue: 52 Pages: 9426-9431
  • DOI: 10.1021/bi401213m
  • Peer Reviewed
• [Journal Article] Theoretical insight in to hydrogen-bonding networks and proton wire for the CaMn405 cluster of photosystem II. Elongation of Mn-Mn distances with hydrogen bonds (2013)
  • Author(s): M. Shoji, H. Isobe, S. Yamanaka, Y. Umena, K. Kawakami, N. Kamiya, J. -R. Shen and K. Yamaguchi
  • Journal Title: Catal. Sci. & Technol. Volume: 3 Issue: 7 Pages: 1831-1848
  • DOI: 10.1039/c3cy00051f
  • Peer Reviewed
• [Journal Article] Structure and reactivity of the mixed-alence CaMn_4O_5(H_2O)_4 and CaMn_4O_4(OH)(H_2O)_4 clusters at oxygen evolution complex of photosystem II.Hybrid DFT (UB3LYP and UBHANDHLYP) calculations (2012)
  • Author(s): T.Saito, S.Yamanaka, K.Kanda, H.Isobe, Y.Takano, Y.Shigeta, Y.Umena, K.Kawakami, J.-R.Shen, N.Kamiya, M.Okumura, M.Shoji, Y.Yoshioka, K.Yamaguchi
  • Journal Title: International Journal of Quantum Chemistry Volume: 112 Issue: 1 Pages: 321-343
  • DOI: 10.1002/qua.23261
  • Peer Reviewed
• [Journal Article] Theoretical illumination of water-inserted structures of the CaMn4O5 cluster in the S2 and S3 states of oxygen-evolving complex of photosystem II: full geometry optimizations by B3LYP hybrid density functional (2012)
  • Author(s): H. Isobe, M. Shoji, S. Yamanaka, Y. Umena, K. Kawakami, N. Kamiya, J.-R. Shen, K. Yamaguchi
  • Journal Title: Dalton Transactions Volume: 41 Issue: 44 Pages: 13727-13740
  • DOI: 10.1039/c2dt31420g
  • Peer Reviewed
• [Presentation] ヨウ素イオンによるシアノバクテリア由来光化学系IIの酸素発生阻害機構 (2015)
  • Author(s): 川上恵典, 萩原大介, 梅名泰史, 福島佳優, 伊藤亮孝, 手木芳男, 沈建仁, 神谷信夫
  • Organizer: 日本結晶学会年会
  • Place of Presentation: 大阪府
  • Year and Date: 2015-10-17
• [Presentation] 光合成の基盤であるPSIIの結晶構造解析と展望 (2015)
  • Author(s): 川上恵典
  • Organizer: 日本植物学会年会
  • Place of Presentation: 新潟県
  • Year and Date: 2015-09-06
  • Invited
• [Presentation] ヨウ素イオンによる植物・藻類の酸素発生阻害機構の解明 (2015)
  • Author(s): 川上恵典, 萩原大介, 梅名泰史, 福島佳優, 伊藤亮孝, 手木芳男, 沈建仁, 神谷信夫
  • Organizer: 反応中心セミナー
  • Place of Presentation: 京都府
  • Year and Date: 2015-07-11
• [Presentation] Inhibition mechanism of the water-splitting reaction of photosystem II by iodine ions (2015)
  • Author(s): Keisuke Kawakami, Daisuke Hagiwara, Yasufumi Umena, Yoshimasa Fukushima, Akitaka Ito, Yoshio Teki, Jian-Ren Shen, and Nobuo Kamiya
  • Organizer: 第56回植物生理学会年会
  • Place of Presentation: 東京農業大学（東京都世田谷区桜丘1-1-1）
  • Year and Date: 2015-03-16 – 2015-03-18
• [Presentation] Inhibition mechanism of the water-splitting reaction of photosystem II by iodine ions (2014)
  • Author(s): Keisuke Kawakami, Daisuke Hagiwara, Yasufumi Umena, Yoshimasa Fukushima, Akitaka Ito, Yoshio Teki, Jian-Ren Shen, and Nobuo Kamiya
  • Organizer: 第８回ナノメディシン国際シンポジウム
  • Place of Presentation: 愛媛大学（愛媛県松山市道後樋又10番13号）
  • Year and Date: 2014-12-04 – 2014-12-06
• [Presentation] Inhibition mechanism of the water-splitting reaction of photosystem II by iodine ions (2014)
  • Author(s): Keisuke Kawakami, Daisuke Hagiwara, Yasufumi Umena, Yoshimasa Fukushima, Akitaka Ito, Yoshio Teki, Jian-Ren Shen, and Nobuo Kamiya
  • Organizer: ICARP2014
  • Place of Presentation: Awaji Yumebutai International Conference Center（兵庫県淡路市夢舞台1番地）
  • Year and Date: 2014-11-24 – 2014-11-28
• [Presentation] ヨウ素イオンによる光化学系II複合体の酸素発生阻害機構 (2014)
  • Author(s): 川上恵典・萩原大介・梅名泰史・福島佳優・伊藤亮孝・手木芳男・沈建仁・神谷信夫
  • Organizer: 第87回日本生化学会大会
  • Place of Presentation: 国立京都国際会館（京都市左京区岩倉大鷺町422）
  • Year and Date: 2014-10-15
  • Invited
• [Presentation] ヨウ素イオンによる光化学系 II 複合体の酸素発生阻害機構 (2014)
  • Author(s): 川上恵典・萩原大介・梅名泰史・福島佳優・伊藤亮孝・手木芳男・沈建仁・ 神谷信夫
  • Organizer: 第５回日本光合成学会年会
  • Place of Presentation: 近畿大学（大阪府東大阪市小若江3-4-1）
  • Year and Date: 2014-05-30 – 2014-05-31
• [Presentation] 植物の酸素発生型光化学系II研究の過去・現在、そして未来 (2014)
  • Author(s): 川上恵典
  • Organizer: ナノバイオテクノロジー研究会
  • Place of Presentation: 名古屋工業大学
  • Invited
• [Presentation] Towards structural elucidation of PSII-LHCII supercomplex from Chlamydomonas reinhardtii (2014)
  • Author(s): Keisuke Kawakami
  • Organizer: The 2013 OCARINA Annual International Meeting
  • Place of Presentation: 大阪市立大学
• [Presentation] ヨウ素イオンによる光化学系 II 複合体の酸素発生阻害機構 (2013)
  • Author(s): 川上恵典
  • Organizer: 蛋白質研究所セミナー
  • Place of Presentation: 大阪大学蛋白質研究所
  • Invited
• [Presentation] 酸素発生光化学系II 複合体におけるβ-クリプトキサンチンの同定 (2013)
  • Author(s): 川上恵典、藤井律子、梅名泰史、小澤真一郎、高橋裕一郎、橋本秀樹、神谷信夫、沈建仁
  • Organizer: 日本光合成学会
  • Place of Presentation: 名古屋大学
• [Presentation] How iodine ions inhibit the oxygen evolution of photosystem II? (2013)
  • Author(s): Keisuke Kawakami, Daisuke Hagiwara, Yasufumi Umena, Jian-Ren Shen, and Nobuo Kamiya
  • Organizer: The 16th International Congress on Photosynthesis
  • Place of Presentation: セントルイス（アメリカ）
• [Presentation] 光合成膜タンパク質光化学系 ll の結晶構造とその後の展開 (2013)
  • Author(s): 川上恵典
  • Organizer: 有期太陽電池シンポジウム
  • Place of Presentation: 京都大学
  • Invited
• [Presentation] 中性子結晶構造解析による植物の酸素発生機構の理解とその取り組みについて (2013)
  • Author(s): 川上恵典、神谷信夫
  • Organizer: 蛋白質研究所セミナー
  • Place of Presentation: 大阪大学蛋白質研究所
• [Presentation] How iodide ions inhibit the oxygen evolution of photosystem II? (2013)
  • Author(s): K. Kawakami, D. Hagiwara, Y. Umena, J.・R. Shen, N. Kamiya
  • Organizer: 2012 OCARINA Annual International Meeting-Launch of the Artificial Photosynthesis Research Center
  • Place of Presentation: 大阪市立大学
• [Presentation] 酸素発生光化学系II複合体における B・クリプトキサンチンの同定 (2012)
  • Author(s): 川上恵典, 藤井律子, 梅名泰史, 小澤真一郎, 高橋裕一郎, 橋本秀樹, 神谷信夫, 沈建仁
  • Organizer: カロテノイド研究談話会
  • Place of Presentation: 北海道函館
• [Presentation] 光化学系II複合体結晶の高分解能化 (2012)
  • Author(s): 川上恵典
  • Organizer: 蛋白研セミナー
  • Place of Presentation: 大阪大学蛋白質研究所(招待講演)
• [Presentation] How iodide ions inhibit the oxygen evolution of photo system II? (2012)
  • Author(s): K. Kawakami, D. Hagiwara, Y. Umena, J.・R. Shen, N. Kamiya
  • Organizer: 岡山国際シンポジウム
  • Place of Presentation: 岡山大学
• [Book] 『光エネルギーによる物質変換の化学』(仮題) (2015)
  • Author(s): 川上恵典・神谷信夫
  • Publisher: 三共出版
• [Book] 光合成研究と産業応用最前線 (2014)
  • Author(s): 川上恵典・神谷信夫
  • Total Pages: 405
  • Publisher: NTS
• [Remarks] 大阪市立大学複合先端研究機構/プロフィール・業績
  • URL: http://www.ocarina.osaka-cu.ac.jp/profile/keisuke_kawakami_j.html
• [Remarks] 大阪市立大学・複合先端研究機構（川上恵典のプロフィール）
  • URL: http://www.ocarina.osaka-cu.ac.jp/profile/keisuke_kawakami_j.html
• [Remarks] 大阪市立大学・研究者要覧（川上恵典）
  • URL: http://rdbsv02.osaka-cu.ac.jp/profile/ja.XsHrP.o5lzyFSrodmBlidA==.html#profile
• [Remarks] 大阪市立大学・複合先端研究機構
  • URL: http://www.ocarina.osaka-cu.ac.jp/profile/keisuke_kawakami_j.html
• [Remarks]
  • URL: http://www.ocarina.osaka-cu.ac.jp/member_j.html