Studies on the molecular behavior of the 26S proteasome by a low resolution structure analysis

• Project/Area Number: 22570113
• Research Category: Grant-in-Aid for Scientific Research (C)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: Structural biochemistry
• Research Institution: Kyoto University
• Principal Investigator: MORIMOTO Yukio 京都大学, 原子炉実験所, 教授 (80200450)
• Project Period (FY): 2010 – 2012
• Project Status: Completed (Fiscal Year 2012)
• Budget Amount: ¥4,680,000 (Direct Cost: ¥3,600,000、Indirect Cost: ¥1,080,000); Fiscal Year 2012: ¥650,000 (Direct Cost: ¥500,000、Indirect Cost: ¥150,000); Fiscal Year 2011: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000); Fiscal Year 2010: ¥2,470,000 (Direct Cost: ¥1,900,000、Indirect Cost: ¥570,000)
• Keywords: X線結晶構造解析 / プロテアソーム / 分子動態 / Ｘ線結晶構造解析 / 結晶構造解析 / 脱ユビキチン化酵素

Research Abstract

In this study, the 26S proteasome, whole particle, was investigated at the
(1) purification from gene-modified yeast and crystallization
and (2) small-angle scattering analysis for clarifying a shape of the whole particle and phase calculation in a crystallographic electron density map by the shape function.

Research Products

• [Journal Article] Cyanidioschyzon melorae ferredoxin: a high resolution crystal structure analysis and its thermal stability (2011)
  • Author(s): A.Yamaoka, Y. Ozawa, Y. Ueno, Y. Morimoto, A. Urushiyama, D. Ohmori, T. Imai
  • Journal Title: FEBS Letters Volume: 585 Issue: 9 Pages: 1299-1302
  • DOI: 10.1016/j.febslet.2011.03.020
  • Peer Reviewed
• [Journal Article] High-resolution X-ray Study of Effects of Deuteration on Crystal Growth and Crystal Structure of Proteinase K (2011)
  • Author(s): T. Chatake, T. Ishikawa, Y. Yanagisawa, T. Yamada, I. Tanaka, S. Fujiwara and Y. Morimoto
  • Journal Title: Acta Cryst Volume: F67 Issue: 11 Pages: 1334-1338
  • DOI: 10.1107/s1744309111031903
  • Peer Reviewed
• [Journal Article] Large conformational changes in the Escherichia colitryptophan synthase ・2 subunit upon pyridoxal 5'-phosphate binding (2010)
  • Author(s): K. Nishio, K. Ogasahara, Y. Morimoto, T. Tsukihara, S. J. Lee and K. Yutani
  • Journal Title: FEBS Journal Volume: 277 Issue: 9 Pages: 2157-2170
  • DOI: 10.1111/j.1742-4658.2010.07631.x
  • Peer Reviewed
• [Journal Article] Purification, crystallization and preliminary X-ray diffractionexperiment of nattokinase from Bacillus subtilis natto (2010)
  • Author(s): Y. Yanagisawa, T. Chatake, K. ChibaKamoshida, S.Naito, T. Ohsugi, H. Sumi, I. Yasuda and Y.Morimoto
  • Journal Title: Acta Cryst Volume: F66 Issue: 12 Pages: 1670-1673
  • DOI: 10.1107/s1744309110043137
  • Peer Reviewed
• [Journal Article] Direct Determination of Protonation States of Histidine Residues in a 2A Neutron Structure of deoxyHuman Normal Adult Hemoglobin and Implications for the Bohr Effect (2010)
  • Author(s): A. Kovalevsky, T. Chatake, N. Shibayama, S.-Y. Park,T. Ishikawa, M. Mustyakimov, Z. Fisher, P. Langan, Y. Morimoto
  • Journal Title: J.Mol.Biol Volume: 398 Issue: 2 Pages: 276-291
  • DOI: 10.1016/j.jmb.2010.03.016
  • Peer Reviewed
• [Journal Article] Protonation states of histidine and other key residues in deoxy-human normal adult hemoglobin by neutron protein crystallography (2010)
  • Author(s): A. Kovalevsky , T. Chatake, N. Shibayama,S.-Y. Park, T. Ishikawa, M.Mustyakimov, S. Z.Fisher, P. Langan and Y.Morimoto
  • Journal Title: Acta.Cryst Volume: D66 Issue: 11 Pages: 1144-1152
  • DOI: 10.1107/s0907444910025448
  • Peer Reviewed
• [Journal Article] An approach to DNA crystallization using the thermal reversible process of DNA duplexes (2010)
  • Author(s): T.Chatake, G.Sazaki, T.Kikkou, S.Fujiwara, T.Ishikawa, O.Matsumoto and Y.Morimoto
  • Journal Title: Crystal Growth & Design Volume: 10 Issue: 3 Pages: 1090-1095
  • DOI: 10.1021/cg9007075
  • Peer Reviewed
• [Journal Article] Crystal structure of the deubiquitinating enzyme UCH37 (human UCH-L5) catalytic domain (2009)
  • Author(s): K. Nishio, S.-W. Kim, K. Kawai, T. Mizushima, T. Yamane, J. Hamazaki, S. Murata, K. Tanaka and Y. Morimoto
  • Journal Title: BBRC Volume: 390 Issue: 3 Pages: 855-860
  • DOI: 10.1016/j.bbrc.2009.10.062
  • Peer Reviewed
• [Journal Article] Structural Insights on the Mammalian Supra-Macromolecular Complex and its Subunit Exchanges (2009)
  • Author(s): Yukio Morimoto
  • Journal Title: Viva origino Volume: 37 Pages: 66-72
  • NAID: 110007651044
  • URL: http://www.origin-life.gr.jp/3704/3704066/3704066.pdf
  • Peer Reviewed
• [Presentation] プロテアソームを弱く阻害する臨床薬剤の結合様式の解明 (2013)
  • Author(s): 海野昌喜、前川拓磨、村上琢人、佐伯泰、田中啓二、久留一郎、山口宏、（森本幸生）
  • Organizer: 日本蛋白質科学会年会
  • Place of Presentation: とりぎん文化会館
• [Presentation] Crystal structure of the yeast 20S proteasome in complex with new inhibitor.20S プロテアソームの機能阻害と X 線結晶構造解析 (2012)
  • Author(s): T. Maekawa, K. Nishio, U. Bahrudin, I.Hisatome, Y.Saeki, K. Tanaka, H. Yamaguchi, and Y. Morimoto
  • Organizer: 日本 生物 物理 学会 年会
  • URL: http://www.aeplan.co.jp/bsj2012/program.html
• [Presentation] Structural investigation of the yeast 26S proteasome in anaqueous solution by a small-angle X-ray scattering, X 線小角散乱法による酵母26Sプロテアソームの構造研究 (2012)
  • Author(s): Y.Morita, T.Matsumoto, A.Yamano and Y.Morimoto
  • Organizer: 日本生物物理学会年会
  • URL: http://www.aeplan.co.jp/bsj2012/program.html
• [Presentation] Thermal stability of a [2Fe-2S] ferredoxin from Cyanidioschyzon merolae can be modified by a single amino acid substitution, Extremophiles (2012)
  • Author(s): Y . Ueno, A. Sando, H. Tokiwa, Y . Morimoto, Y . Kato-Yamada and T. Imai
  • Organizer: 9th international congress
  • URL: http://congreso.us.es/extremophiles/
• [Presentation] Crystal structure of the yeast 20S proteasome in complex with new inhibitor (2012)
  • Author(s): T. Maekawa,a K. Nishio,b U. Bahrudin,c I. Hisatome,c Y. Saeki,d K. Tanaka,d H. Yamaguchi,a and (Y. Morimoto)
  • Organizer: 日本生物物理学会年会
  • Place of Presentation: 名古屋大学
• [Presentation] Structural investigation of the yeast 26S proteasome in anaqueous solution by a small-angle X-ray scattering (2012)
  • Author(s): Y.Morita, T.Matsumoto, A.Yamano and (Y.Morimoto)
  • Organizer: 日本生物物理学会年会
  • Place of Presentation: 名古屋大学
• [Presentation] Structural Insights of the S1 Pocket in the Yeast 20S Proteasome (2011)
  • Author(s): T.Maekawa, K.Nishio, U.Bahrudin, I.Hisatome, Y.Saeki, K.Tanaka, H.Yamaguchi, Y.Morimoto
  • Organizer: 国際結晶学会
  • Place of Presentation: マドリード(スペイン)
  • Year and Date: 2011-08-23
• [Presentation] A liberal structure of the yeast 26S proteasome by small-angle scattering analysis (2011)
  • Author(s): Y. Morita, K. Nishio, T. Inobe, M. Sugiyama, and Y. Morimoto
  • Organizer: Neutrons in Biology and Biotechnology
  • URL: http://www.ill.eu/nib2011/
• [Presentation] 耐熱性酵母プロテアソームの機能・構造解析に向けた取り組み Towards a structure-function analysis on thermotolerant yeast proteasome (2011)
  • Author(s): 西尾 和也、佐伯 泰、田中 啓二、 森本 幸生
  • Organizer: 日本蛋白質科学会
  • URL: http://www.aeplan.co.jp/pssj2011/
• [Presentation] Structural Insights of the S1 Pocket in the Yeast 20S Proteasome, IUCr2011 (2011)
  • Author(s): T. Maekawa, K. Nishio, U. Bahrudin, I.Hisatome, Y. Saeki, K. Tanaka, H. Yamaguchi, and Y. Morimoto
  • Organizer: Congr. Int. Union of Cryst., Acta.Cryst. A67 C223
  • URL: http://www.iucr2011madrid.es/
• [Presentation] 新規プロテアソーム阻害剤の構造学的考察 (2011)
  • Author(s): 前川拓摩・西尾和也・Udin Bahrudin・久留一郎・佐伯泰・田中啓二・山口宏・森本幸生
  • Organizer: 日本結晶学会
  • URL: http://regulus.sci.hokudai.ac.jp/crsj2011/
• [Presentation] 脱ユビキチン化酵素UCH37触媒ドメインの結晶構造解析 (2010)
  • Author(s): 西尾和也、金相佑、河合健太郎、水島恒裕、山根隆、濱崎純、村田茂穂、田中啓二、森本幸生
  • Organizer: 日本蛋白質化学会 第10回年会
  • Place of Presentation: 札幌コンベンションセンター
  • Year and Date: 2010-06-16
• [Presentation] 脱ユビキチン化酵素UCH37触媒ドメインの結晶構造解析 (2010)
  • Author(s): 西尾 和也、金 相佑、河合 健太郎、水島恒裕、山根 隆、濱崎 純、村田 茂穂、田中 啓二、森本 幸生
  • Organizer: 日本蛋白質科学会
  • URL: http://www.aeplan.co.jp/pssj2010/
• [Presentation] SANS Investigation of Packing Structure of Proteasome Activator 28 with Deuterated Subunit (2009)
  • Author(s): M.sugiyama, E.Kurimoto, Y .Morimoto, K.Ito, K.Mori, T.Fukunaga and K.Kato
  • Organizer: SAS2009
  • URL: http://iopscience.iop.org/1742-6596/247/1/011001/pdf/1742-6596_247_1_011001.pdf
  • Place of Presentation: Oxford
• [Presentation] プロテアソーム複合体におけるサブユニットキネティクスの研究 (2009)
  • Author(s): 杉山正明、森本幸生、森一広、伊藤恵司、福永俊晴、加藤晃一、栗本英治、平井光晴、G.Zacca
  • Organizer: 日本中性子科学会
  • Place of Presentation: http://www.jsns.net/jp/
• [Remarks]
  • URL: http://www.rri.kyoto-u.ac.jp/morimotolabo.html