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Development of electron diffraction methods for protein crystallography

Research Project

Project/Area Number 10558106
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section展開研究
Research Field Biophysics
Research InstitutionThe University of Tokyo

Principal Investigator

TOYOSHIMA Chikashi  The University of Tokyo, Institute of Molecular and Cellular Biosciences, Professor, 分子細胞生物学研究所, 教授 (70172210)

Co-Investigator(Kenkyū-buntansha) SUZUKI Seiichi  Quark Inc., President, 代表取締役
OGASAWARA Mitsuo  Hitachi, Ltd., Instrument Division, Scientific Instrument Systems Cluster, engineer, 計測器事業部・科学機器システム本部・第一設計部, 技師
NAKASAKO Masayoshi  The University of Tokyo, Institute of Molecular and Cellular Biosciences, lecturer, 分子細胞生物学研究所, 講師 (30227764)
Project Period (FY) 1998 – 1999
Project Status Completed (Fiscal Year 1999)
Budget Amount *help
¥11,400,000 (Direct Cost: ¥11,400,000)
Fiscal Year 1999: ¥1,400,000 (Direct Cost: ¥1,400,000)
Fiscal Year 1998: ¥10,000,000 (Direct Cost: ¥10,000,000)
Keywordselectron diffraction / crystallography / structure analysis / cryo electron microscopy / cryo holder / protein crystal / data collection
Research Abstract

Rotation camera and related methods for electron diffraction from thin protein crystals have been developed for facilitating the structure determination of membrane proteins of biological importance. This involved many modifications of the microscope and developments of computer control software and high tilt angle cryospecimen holder. Also developed was a set of programmes for indexing of reflections, integration and scaling of electron diffraction intensities. These developments were necessary because the diffraction patterns from multilayer crystals should be treated as those from 3-dimensional crystals, yet cannot be analysed by conventional X-ray crystallography.
First version of the rotation camera used DC motor and integrated rotary encoder, and slow-scan CCD detector. This system was constructed without much investment and can be applied to most of modern electron microscopes. This system was applied to ultrathin crystals of Ca^<2+>-ATPase and yielded preliminary data to ±30゜ of tilt. By using"minimum dose electron diffraction procedures"developed in this study, up to 100 diffraction patters (rotation images) could be recorded from each area. The second version consisted of Heidenhein's high-precision rotary encoder and pulse motor. The hardware Was assembled but the control software was incomplete and yet to be developed. Nevertheless, the preliminary results obtained are very promising.

Report

(3 results)
  • 1999 Annual Research Report   Final Research Report Summary
  • 1998 Annual Research Report
  • Research Products

    (46 results)

All Other

All Publications (46 results)

  • [Publications] C.Toyoshima: "Crystal structure of the calcium pump of sarcoplasmic reticulum at 2.6A resolution."Nature. 405. 647-655 (2000)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] H.Ogawa: "Soluble P-type ATP ase from an archaeon, Methanococcus jannaschii"FEBS letters. 471. 99-102 (2000)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] S.Hua: "Distinct topologies of mono-and decavanadate binding and photooxidative cleavage in the sarcoplasmic reticulum ATP ase"J.Biol.Chem.. 275. 30546-30550 (2000)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] A.Zhang: "Detailed characterization of the cooperative mechanism of Ca^<2+> binding and catalytic activation in the Ca^<2+> transport(SERCA)ATPase."Biochemistry. 39. 8758-8767 (2000)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] C.Toyoshima: "Structure determination of tubular crystals of membrane proteins. I.Indexing of diffraction patterns."Ultramicroscopy. 84. 1-14 (2000)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] K.Yonekura: "Structure determination of tubular crystals of membrane proteins. II.Averaging of tubular crystals of different helical classes."Ultramicroscopy. 84. 15-28 (2000)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] K.Yonekura: "Structure determination of tubular crystal of membrane proteins. III.Solvent flattening."Ultramicroscopy. 84. 29-45 (2000)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] 小川 治夫: "チャネルの立体構造決定法 I"脳の科学. 21. 997-1004 (1999)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] 小川 治夫: "チャネルの立体構造決定法 II"脳の科学. 21. 1121-1128 (1999)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] 豊島 近: "イオンチャネル、ポンプの構造と機能"蛋白質・核酸・酵素. 44. 557-565 (1999)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] 小川治夫: "膜蛋白質の構造解析"ファルマシア. 35. 33-38 (1999)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] P.Zhang: "Structure of the calcium pump from sarcoplasmic reticulum at 8Å resolution."Nature. 392. 835-839 (1998)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] H.Ogawa: "Structure of the Ca^<2+> pump of sarcoplasmic reticulum : A view along the lipid bilayer at 9-Å resolution."Biophys.J.. 75. 41-52 (1998)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] K.Mayanagi: "Three-dimensional electron microscopy of the photosystem II core complex."J.Struct.Biol.. 123. 211-224 (1998)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] 米倉功治: "P型イオンポンプの立体構造"細胞工学. 17. 1270-1271 (1998)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] E.Carafoli and J.Krebs: "Calcium Homeostasis(Topics in Biological Inorganic Chemistry Vol.3)"Springer-Verlag, Berlin. (2000)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] H.A.C.Benavides and M.J.Yacaman: "Electron Microscopy 1998"Institute of Physics Publishing, Bristol and Philadelphia. (1998)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] C.Toyoshima: "Crystal structure of the calcium pump of sarcoplasmic reticulum at 2.6Å resolution."Nature. 405. 647-655 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] H.Ogawa: "Soluble P-type ATPase from an archaeon, Methanococcus jannaschii."FEBS letters. 471. 99-102 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] S.Hua: "Distinct topologies of mono-and decavanadate binding and photooxidative cleavage in the sarcoplasmic reticulum ATPase."J.Biol.Chem. 275. 30546-30550 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] A.Zhang: "Detailed characterization of the cooperative machanism of Ca^<2+> binding and catalytic activation in the Ca^<2+> transport(SERCA)ATPase."Biochemistry. 39. 8758-8767 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] C.Toyoshim: "Structure determination of tubular crystals of membrane proteins. I.Indexing of diffraction patterns."Ultramicroscopy. 84. 1-14 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] K.Yonekura: "Structure determination of tubular crystals of membrane proteins. II.Averaging of tubular crystals of different helical classes."Ultramicroscopy. 84. 15-28 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] K.Yonekura: "Structure determination of tubular crystals of membrane proteins. III.Solvent flattening."Ultramicroscopy. 84. 29-45 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] G.Inesi: "The Ca^<2+>pump of sarco-and endoplasmic reticulum membranes."In "Calcium Homeostasis (Topics in Biological Inorganic Chemistry Vol.3)", eds.E.Carafoli and J.Krebs. Springer-Verlag, Berlin. 143-154 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] H.Ogawa: "Methods for structure determination of channels I.(in Japanese)"Brain Science. 21. 997-1004 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] H.Ogawa: "Methods for structure determination of channels II.(in Japanese)"Brain Science. 21. 1121-1128 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] C.Toyoshima: "Structures and functions of ion channels and pumps. (in Japanese)"Protein, Nucleic Acid and Enzyme. 44. 557-565 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] H.Ogawa: "Structural analysis of membrane proteins. (in Japanese)"Pharmacia. 35. 33-38 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] P.Zhang: "Structure of the calcium pump from sarcoplasmic reticulum at 8 Å resolution."Nature. 392. 835-839 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] H.Ogawa: "Structure of the Ca^<2+> pump of sarcoplasmic reticulum : A view along the lipid bilayer at 9-Å resolution."Biophys.J.. 75. 41-52 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] C.Toyoshima: "Electron crystallography of thin protein crystals."In "Electron Microscopy 1998", eds.H.A.C.Benavides and M.J.Yacaman, Institute of Physics Publishing, Bristol and Philadelphia. 395-396 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] K.Mayanagi: "Three-dimensional electron microscopy of the photosystem II core complex."J.Struct.Biol.. 123. 211-224 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] K.Yonekura: "Three-dimensional structure of P-type ion pump. (in Japanese)"Cell Technology. 17. 1270-1271 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1999 Final Research Report Summary
  • [Publications] C.Toyoshima: "Structure determination of tubular crystals of membrane proteins.I. Indexing of diffraction patterns."Ultramicroscopy. (in press).

    • Related Report
      1999 Annual Research Report
  • [Publications] K.Yonekura: "Structure determination of tubular crystals of membrane proteins.II. Averaging of tubular crystals of different helical classes."Ultramicroscopy. (in press).

    • Related Report
      1999 Annual Research Report
  • [Publications] K.Yonekura: "Structure determination of tubular crystals of membrane proteins.III. Solvent flattening."Ultramicroscopy. (in press).

    • Related Report
      1999 Annual Research Report
  • [Publications] 小川治夫: "チャネルの立体構造決定法 I"脳の科学. 21. 997-1004 (1999)

    • Related Report
      1999 Annual Research Report
  • [Publications] 小川治夫: "チャネルの立体構造決定法 II"脳の科学. 21. 1121-1128 (1999)

    • Related Report
      1999 Annual Research Report
  • [Publications] 豊島 近: "イオンチャネル、ポンプの構造と機能"蛋白質・核酸・酵素. 44. 557-565 (1999)

    • Related Report
      1999 Annual Research Report
  • [Publications] 小川治夫: "膜蛋白質の構造解析"ファルマシア. 35. 33-38 (1999)

    • Related Report
      1999 Annual Research Report
  • [Publications] Carafoli and Krebs: "Topics in Biological Inorganic Chemistry Vol.3"Springer (in press).

    • Related Report
      1999 Annual Research Report
  • [Publications] P.Zhang: "Structure of the calcium pump from sarcoplasmic reticulum at 8Å resolution" Nature. 392. 835-839 (1998)

    • Related Report
      1998 Annual Research Report
  • [Publications] H.ogawa: "Structure of the Ca^<2+> pump of sarcoplasmic reticulum: A view along the lipid bilayer at 9-Å resolution" Biophys.J.75. 41-52 (1998)

    • Related Report
      1998 Annual Research Report
  • [Publications] K.Mayanagi: "Three-dimensional electron microscopy of the photosystem II core complex." J.Struct.Biol.123. 211-224 (1998)

    • Related Report
      1998 Annual Research Report
  • [Publications] 米倉功治: "P型イオンポンプの立体構造" 細胞工学. 17. 1270-1271 (1998)

    • Related Report
      1998 Annual Research Report

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Published: 1998-04-01   Modified: 2016-04-21  

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