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Millisecond Order Dynamics of Protein Crystal Structure Using Syncrotron Radiation.

Research Project

Project/Area Number 05244104
Research Category

Grant-in-Aid for Scientific Research on Priority Areas

Allocation TypeSingle-year Grants
Research InstitutionFoundation for Advancement of International Science (1997)
University of Tsukuba (1994-1996)
National Laboratory for High Energy Physics (1993)

Principal Investigator

SAKABE Noriyoshi  Foundation for Advancement of International Science Resercher, 研究開発部, 専任研究員 (30022601)

Co-Investigator(Kenkyū-buntansha) SAKABE Kiwako  Foundation for Advancement of International Science Resercher, 専任研究員
TANOKURA Masaru  Biotechnology Research Center, University of Tokyo Professor, 生物生産工学研究センター, 教授 (60136786)
EBASHI Setsuro  Pkazaki National Research Institute Honarary Professor, 生理研, 名誉教授 (10009863)
MITSUI Yukio  Department of Bio Engineering, Nagaoka University of Rechnology Professor, 生物系, 教授 (40012637)
YAMANE Takashi  Graduate School of Engineering, Nagoya Univ.Professor, 工学部, 教授 (80030055)
大沢 文夫  愛知工業大学, 教養部, 客員教授 (50022497)
京極 好正  大阪大学, 蛋白質研究所, 教授 (90012632)
芦田 玉一  名古屋大学, 工学部, 教授 (10029936)
Project Period (FY) 1993 – 1997
Project Status Completed (Fiscal Year 1997)
Budget Amount *help
¥41,500,000 (Direct Cost: ¥41,500,000)
Fiscal Year 1997: ¥3,000,000 (Direct Cost: ¥3,000,000)
Fiscal Year 1996: ¥10,000,000 (Direct Cost: ¥10,000,000)
Fiscal Year 1995: ¥11,000,000 (Direct Cost: ¥11,000,000)
Fiscal Year 1994: ¥10,500,000 (Direct Cost: ¥10,500,000)
Fiscal Year 1993: ¥7,000,000 (Direct Cost: ¥7,000,000)
KeywordsTime resolved Laue / millisecond / Synchrotron Radiation / process of reaction / white x-ray / dynamic protein structure / time resolution / X-ray analysis / 蛋白質結晶構造 / ニュースレター / photon Factory / 国際 / Photon Factory / 放射光 / ミリ秒オーダー / X線結晶解析 / ラウエ法 / 原子レベル / 動的構造
Research Abstract

Contrary to the prevailing idea that x-ray crystal structure analyzes elucidate only the static aspects of structures, the present project aims at elucidating the time dependent structures of proteins in their processes of reaction at a millisecond order time-resolution and thus understanding such processes of reaction in terms of three-dimensional structur change by Laue method. We have challenged this difficult study for 4 years from 1993 to 1996, extensively. At the end of this research project, we can summarize our success in following five items ; (1) construction of a data collection system based on a macromolecule-oriented time-resolved Laue camera which we can also use for Weissenberg camera with monochromatic X-rays at the bending magnet beam line BL-18B in the PF,(2) development of data processing software based on the Laue suites of CCP4, (3) establishment of various supporting techniques including application tequnique of various softwares for X-ray crystal structure analys … More is and crystallization techniques especially membrane protein, (4) comming close to elucidate the reaction process by the time-resolved Laue method, (5) Structure analyzes of many proteins reaction proccess of which are very important to study. One of the most prominent result of these structure analyzes is that of cytocrome c oxydase from beef by prof.Tsukahara.
Finally above instrument and techniques were applied to study the several kinds of protein systems including haem proteins, RNA degrading enzymes, and nucleotide-binding proteins in terms of their reaction and control mechanism. The most prominent work is the elucidating time dependent structure of glutatione syntheses by Prof.Oda. These results are reported in the final project report with publications and minute books publised by the advisery group leaded by Prof.S Ebashi for 5 years where it shows how a new field has been developed by the corporation of specialists from various scientific field, such as physics, crystallography, organic synthesis, physical chemist, MNR specialist, biochamist, theoretical physicist and spectroscopists, and a brief content of publications and symposiums. Less

Report

(4 results)
  • 1997 Final Research Report Summary
  • 1996 Annual Research Report
  • 1995 Annual Research Report
  • 1993 Annual Research Report
  • Research Products

    (37 results)

All Other

All Publications (37 results)

  • [Publications] 坂部知平, 坂部貴和子, 渡辺信久: "Time-Resolved Protein Crystallography with LOT An Application of Protein Data Collection System with Weissenberg Techninque and Large Imaging" J.S.R.4. 14-16 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] 坂部貴和子, 渡辺信久, 坂部知平: "Large-Format Imaging Plate and Weissenberb Camera for Accurate Protein Crystallographic Data Collection Using Synchrotron" J.S.R. 4. 136-146 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] 山根隆, 芦田玉一: "Crystal structure of stroptomyces eryzhracus trypsin at 1.9A Resolution" J.Biochem. 118. 882-894 (1995)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] 三井幸雄: "Crystal structure of the binary and ternary complexes of 7α-hydroxy-steroid dehydrogonase from E-coli" Biochemistry. 35. 7715-7724 (1996)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] 大沢文夫: "Sliding and AtPase" J.Biochem. 118. 863-870 (1995)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] 田之倉優: "Crystal structure of ribonuclease Tl carbosy meihylated at Glu58 in complex with 2GHP" Biochemistry. 35. 1829-8334 (1996)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] 京極好正: "構造生物学とその解析法" 共立出版社, 192 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] 江橋, 三井利夫, 坂部: "Synchirotron Radiation in Biosciences" Oxford Science Publisher, 784 (1994)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Kamiya, N., K.Sasaki, N.Watanabe, N.Sakabe & K.Sakabe: "Time-Resolved Protein Crystallography with Large-Angle Oscillations : an Application of a Protein Data-Collection System Uning the Weissenberg Technique and a Large Format Imaging Plate" J.Synchrotron Rad.4(1). 14-16 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Sakabe K., K.Sasaki, N.Watanabe, M.Suzuki, Z.G.Wang, J.Miyahara & N.Sakabe: "Large-Format Imaging Plate and Weissenberg Camera for Accurate Protein Crystallographic Data Collection Using Synchrotron Radiation" J.Synchrotron Rad.4. 136-146 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] T.Yamane, A.Iwasaki, A.Suzuki, T.Ashida, Y.Kawata, F.Sakiyama: "Crystal Structure of Streptomyces erythracus Trypsin at 1.9A Resolution" J.Biochem.118. 882-894 (1996)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Tanaka, N.Nonaka, T., Tanabe, T., Yoshimoto, T., Tsuru, D.and Mitsui, Y: "Crystal structure of the binary and ternary complexes of 7a-hydroxy-steroid dehydrogesase from E.coli" Biochemistry. 35. 7715-7724 (1996)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] F.Oosawa: "Sliding and ATPase" L.Bioche.118. 863-87019 (1995)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Ishikawa, K.Suzuki, E.Tanokura, M.and Takahashi, K.: "Crystal structure of ribonuclease T1 carboxymethylated at Glu58 in Complex with 2'GMP." Biochemistry. 35. 8329-8334 (1996)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Edited by B.Chance, J.Deisenhofer, S.Ebashi, D.T.Goodhead, J.R.Helliwell, H.E.Huxley, T.Iizuka, J.Kirz, T.Mitsui, E.Rubenstein, N.Sakabe, T.SASAKI,G.Schmahl, H.B.Stuhrmann, K.Wutrich and G.Zaccai: Synchrotron Radiation in the Biosciences. Oxford Science Publications, 784 (1994)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Y.Kyougoku and T.Tsukihara: Structural Biology and three dimensional structure analysis by X-ray and NMR (Japanese). Kyouritsu Publisher, 192 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] 坂部 知平、坂部真知子、渡辺 信久: "Time-Resolved Protein Crystallogroping with LOT An Application of Protein Data Collection System with Welsunberg Technique and Large Issgiyphote" J.S.R. 4. 14-16 (1997)

    • Related Report
      1996 Annual Research Report
  • [Publications] 田之倉 優: "Crystal Structure of riponuclease TI carboxymelhylated at Glu 58 in complex with 2 GMP" Bio Chemistry. 35. 1829-8334 (1996)

    • Related Report
      1996 Annual Research Report
  • [Publications] 三井 幸雄: "Crystal structures of the binary and ternsry complenes of 7d-hydroxy-steroid dehydrogenase from E.Coli" Biochemistry. 35. 7715-7724 (1996)

    • Related Report
      1996 Annual Research Report
  • [Publications] 大沢 文夫: "Biophysics Fitly Years after Scrodinger" Adv.in Biophysics. 32. 1-15 (1996)

    • Related Report
      1996 Annual Research Report
  • [Publications] 福井 俊郎: "Structure of the mutlifusctional loops in the nonclassical ATP-bioling fold of glutatisione synthetase" natuce.Struct.Biol. 3. 16-18 (1996)

    • Related Report
      1996 Annual Research Report
  • [Publications] 芦田玉一: "Structure of a New Alkaline Serine Protease (M. Protease) from Bacillus. sp. K, SM-K16" Aeta Crystallogr.D51. 199-206 (1995)

    • Related Report
      1995 Annual Research Report
  • [Publications] 三井幸雄: "Refined crystal structure of Rceombinant murine Inteyeron-beta at 2.15A resolution" J,Mol.Biol. 255. 735-752 (1996)

    • Related Report
      1995 Annual Research Report
  • [Publications] 大沢文夫: "Sliding and ATPase" J.Biochem,. 118. 863-870 (1995)

    • Related Report
      1995 Annual Research Report
  • [Publications] 福井俊郎・勝部幸輝: "Structure of the Multifunctional Loop:in Nonclassical ATP-Binding Fold of Glutathione Synthetase" Nature Structural Biology. 3. 16-18 (1996)

    • Related Report
      1995 Annual Research Report
  • [Publications] 三井利夫: "Application of a Projection X-ray Microscopc" Zoological Studies. 34. 207-208 (1995)

    • Related Report
      1995 Annual Research Report
  • [Publications] 坂部知平・渡辺信久: "Weissenberg camera for macromolecules With imaging Plate Data Collection System at the Pboton Factory, Present status and Future Plan" Rev. Scie. Instrum. 66. 1276-1281 (1995)

    • Related Report
      1995 Annual Research Report
  • [Publications] 佐藤能雅: "″続医薬品の開発″第17巻(荒田洋治編集)の第1" 廣川書店, 222 (1995)

    • Related Report
      1995 Annual Research Report
  • [Publications] 中井浩二: "Perspective of Meson Science" North Holland, (1992)

    • Related Report
      1995 Annual Research Report
  • [Publications] Y.MITsui,T.Senda et al: "Structural implications of the three-dimensional structure of interferon-beta" Pharmacology and Therapeutics. 58. 93-132 (1993)

    • Related Report
      1993 Annual Research Report
  • [Publications] A.Suzuki,T.Ashida 他: "Crystallographic refinement of Bowman-Birk typeprotease inhibitorA-IIfrom peanut at 2.3A resolution" J.Mol.Biol.234. 722-734 (1993)

    • Related Report
      1993 Annual Research Report
  • [Publications] T.NONAKA,Y.MISUI et al: "Crystal structure of ribonuclease Ms complexed with a GpC analogue" Biochemistry. 32. 11825-11837 (1993)

    • Related Report
      1993 Annual Research Report
  • [Publications] 三井,利夫 大島,広行: "筋収縮の仕組み" 応用物理. 62. 377-386 (1993)

    • Related Report
      1993 Annual Research Report
  • [Publications] Y.Kazuta,M.Tigaya,K.Tanizawa,T.Fukui: "Probing the Pyrophaphate Binding Site in Potato Tuber UDP-Glucose Pyrophosphory lase with Pyridoxal Piphosphate" Protein Science. 2. 119-125 (1993)

    • Related Report
      1993 Annual Research Report
  • [Publications] 坂部,貴和子 坂部,知平: "酵素X線構造解析の最前線" バイオサイエンスとインダストリー. 51. 730-732 (1993)

    • Related Report
      1993 Annual Research Report
  • [Publications] T.Fukui,K.Soda(editors): "Molecular Aspects of Enzyme Catalysis" Kodansha Ltd./VCH Verlags AG, 241 (1994)

    • Related Report
      1993 Annual Research Report
  • [Publications] B.Chance,J.Deisenhofer,N.Sakabe,T.Mitsui,S.Ebashi et al: "Synchrotron Radiation in the Biosciences" Oxford Science Publications, 784 (1994)

    • Related Report
      1993 Annual Research Report

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Published: 1993-04-01   Modified: 2016-04-21  

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