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Crystal Structure Analysis of Spherical Viruses

Research Project

Project/Area Number 03403025
Research Category

Grant-in-Aid for General Scientific Research (A)

Allocation TypeSingle-year Grants
Research Field 結晶学
Research InstitutionThe University of Tokushima

Principal Investigator

TSUKIHARA Tomitake  Univ.Tokushima, Faculty of Engineering, Professor, 工学部, 教授 (00032277)

Co-Investigator(Kenkyū-buntansha) 佐滝 真紀  徳島大学, 工学部, 教務員
和田 正徳  鳥取大学, 工学部, 教授 (30029053)
Project Period (FY) 1991 – 1994
Project Status Completed (Fiscal Year 1994)
Budget Amount *help
¥24,100,000 (Direct Cost: ¥24,100,000)
Fiscal Year 1994: ¥2,300,000 (Direct Cost: ¥2,300,000)
Fiscal Year 1993: ¥1,600,000 (Direct Cost: ¥1,600,000)
Fiscal Year 1992: ¥4,100,000 (Direct Cost: ¥4,100,000)
Fiscal Year 1991: ¥16,100,000 (Direct Cost: ¥16,100,000)
KeywordsSpherical Virus / Crystal Structure / X-ray Analysis / Tertiary Structure / Sttructure Organization / Tobacco Necrosis Virus / Rice Dwarf Virus / X線期析 / 二重殻ウイルス / ウイルス / 分子置換法 / 結晶構造解析
Research Abstract

The TNV subunit is composed of 275 amino acids. TNV crystals belong to the cubic space group P4_232 with the cell dimensions, a=b=c=338*. For the unit cell of 3.86x10^7*^3, containing two virus particles with a molecular weight of about 6.7x10^6, the Vm value is 2.9*^3/dalton. The observed reflections with F>3sigma (F) amounted to 83% of the theoretical number in the 100* to 5* resolution range.
Electron density cages of the final map were constructed at 5* resolution. Twenty-three residues of an N-terminal arm (betaA arm) of the C-subunit exhibits ordered structure. It is shorter than that of SBMV by three residues. The corresponding main chain segments of the subunits A and B were disordered as those in SBMV.The C-subunit model was superposed well after pseudo 3-fold rotations on electron density cages corresponding to the A- and B-subunits except for the betaA arm from residues 66 to 88. Backbone structures around gaps in primary structure are superposed well on the electron density cages.
Secondary structures were named betaA,betaB,betaC,alphaA,betaD,betaE,alphaB,betaF,alphaC,betaG,alphaD,alphaE,betaH and betaI along the polypeptide chain, following the nomenclature for SBMV.Each of A and B subunits has 186 ordered residues in the icosahedral surface, and C subunit has 24 additional ordered residues at betaA.Tertiary structural comparison between TNV and SBMV subunits shows that TNV subunits have two gaps in a loop region between alphaC and betaG,five gaps in continuous segments of alphaD and alphaE,and two gaps in a loop between betaH and betaI.The gaps between alphaC and betaG are inside the virus capsid, and the other gaps are on the surface of the virus particle. The ordered betaA arm of subunit C of TNV is shorter than that of SBMV by three residues.

Report

(5 results)
  • 1994 Annual Research Report   Final Research Report Summary
  • 1993 Annual Research Report
  • 1992 Annual Research Report
  • 1991 Annual Research Report
  • Research Products

    (47 results)

All Other

All Publications (47 results)

  • [Publications] H.Mizuno et al: "Crystallization and Preliminary X-ray Study of a Double-Shelled Spherical Virus,Rice Dwarf Virus." J.Mol.Biol.219. 665-669 (1991)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] S.Yoshikawa et al: "Strategies for Crystallization of Large Membrane Protein Complexes." J.Crystal Growth. 122. 298-302 (1992)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] K.Shinzawa-Itoh et al: "Single Crystals of Bovine Heart Cytochrome c Oxidase at Fully Reduced States are Isomorphous with Each Other." J.Mol.Biol.228. 987-990 (1992)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] 福山恵一,月原冨武: "ウイルスの立体構造" バイオサイエンスと工業. 50. 27-32 (1992)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] H.Mizuno et al: "Crystallization and Preliminary X-ray Studies of Wild Type and Catalytic-site Mutant Amylase from Bacillus subtilis." J.Mol.Biol.234. 1282-1283 (1993)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] 月原冨武,福山恵一: "分子置換法による球状ウイルスのX線結晶構造解析." 放射光. 6. 37-48 (1993)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] 月原冨武 他: "超分子複合体のX線結晶構造解析." 蛋白質・核酸・酵素. 38. 1247-1253 (1993)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] 月原冨武: "超分子複合体の構造解析." 生物物理. 33. 24-29 (1993)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] S.Ikemizu et al: "Crystal Structural Analysis of [2Fe-2S]Ferredoxin I from Equistum Arvense at 1.8Å Resolution." Acta Crystallgr.D50. 167-174 (1994)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] M.Bando et al: "Crystal Structure Analysis of Tobacco Necrosis Virus(TNV) at 5Å Resolution." Acta Crystallgr.D50. 878-883 (1994)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] 月原冨武: "X線結晶構造解析." 蛋白質・核酸・酵素. 39. 1263-1273 (1994)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] H.Mizuno, H.Kano, T.Omura, M.Koizumi, M.Kondoh and T.Tsukihara: "Crystallization and Preliminary X-ray Study of a Double-Shelled Spherical Virus, Rice Dwarf Virus." J.Mol.Biol.219. 665-669 (1991)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] S.Yoshikawa, K.Shinzawa-Itoh, H.Ueda, T.Tsukihara, Y.Fukumoto, T.Kubota, M.Kawamoto, K.Fukuyama and H.Matsubara: "Strategies for Crystallization of Large Mambrane Protein Complexes." J.Crystal Growth. 122. 298-302 (1992)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] K.Shinzawa-Itoh, H.Yamashita, S.Yoshikawa, Y.Fukumoto, T.Abe and T.Tsukihara: "Single Crystals of Bovine Heart Cytochrome c Oxidase at Fully Oxidized Resting, Fully Reduced and CO-bound Fully Reduced States are Isomorphous with Each other." J.Mol.Biol.228. 987-990 (1992)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] K.Fukuyama and T.Tsukihara: "Three-dimensional Structure of Viruses." Sioscience and Industry. 50. 27-32 (1992)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] H.Mizuno, Y.Morimoto, T.Tsukihara, T.Matsumoto and K.Takase: "Crystallization and Preliminary X-ray Studies of Wild Type and Catalytic-site Mutant Amylase from Bacillus subtilis." J.Mol.Biol.234. 1282-1283 (1993)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] T.Tsukihara and K.Fukuyama: "X-ray Crystal Structure Analysis of Spherical Viruses by the Molecular Replacement Method.p.37-48 (1993)." Synchrotron Radiation. 6. 37-48 (1993)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] T.Tsukihara, Y.Morimoto and E.Yamashita: "X-ray Crystal Structure Analysis of Biological Supramolecules." Protein-Nucleic Acid-Enzyme. 38. 1247-1253 (1993)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] T.Tsukihara: "Structure Analysis of Biological Supramolecules" Biophysics. 33. 24-29 (1993)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] S.Ikemizu, M.Bando, T.Sato, Y.Morimoto, T.Tsukihara and K.Fukuyama: "Crystal Structural Analysis of [2Fe-2S] Ferredoxin I from Equistum arvense at 1.8* Resulution." Acta Crystallgr.D50. 167-174 (1994)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] M.Bando, Y.Morimoto, T.Sato, T.Tsukihara, Y.Yokota, K.Fukuyama and H.Matsubara: "Crystal Structure Analysis of Tobacco Nectrosis Virus (TNV) at 5* Resolution." Acta Crystallogr.D50. 878-883 (1994)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] T.Tsukihara: "X-ray Crystal Structure Analysis." Protein-Nucleic Acid-Enzyme. 39. 1263-1273 (1994)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1994 Final Research Report Summary
  • [Publications] H.Mizuno et al: "Crystallization and Preliminary X-ray Study of a Double-Shelled Sphevical Virus,Rice Dwarf Virus." J.Mol.Biol.219. 665-669 (1991)

    • Related Report
      1994 Annual Research Report
  • [Publications] S.Yoshikawa et al: "Strategies for Crystallization of Large Membrane Protein Complexes." J.Crystal Growth. 122. 298-302 (1992)

    • Related Report
      1994 Annual Research Report
  • [Publications] K.Shinzawa-Itoh et al: "Single Crystals of Bovine Heart Cytochrome c Oxidase at Fully Reduced States are Isomorphous with Each Other." J.Mol.Biol.228. 987-990 (1992)

    • Related Report
      1994 Annual Research Report
  • [Publications] 福山恵一,月原冨武: "ウイルスの立体構造." バイオサイエンスと工業. 50. 27-32 (1992)

    • Related Report
      1994 Annual Research Report
  • [Publications] H.Mizuno et al: "Crystallization and PreliminaryX-ray Studies of Wild Type and Catalytic-site Mutant Amylase from Bacillus subtilis." J.Mol.Biol.234. 1282-1283 (1993)

    • Related Report
      1994 Annual Research Report
  • [Publications] 月原冨武,福山恵一: "分子置換法による球状ウイルスのX線結晶構造解析." 放射光. 6. 37-48 (1993)

    • Related Report
      1994 Annual Research Report
  • [Publications] 月原冨武 他: "超分子複合体のX線結晶構造解析." 蛋白質・核酸・酵素. 38. 1247-1253 (1993)

    • Related Report
      1994 Annual Research Report
  • [Publications] 月原冨武: "超分子複合体の構造解析." 生物物理. 33. 24-29 (1993)

    • Related Report
      1994 Annual Research Report
  • [Publications] S.Ikemizu et al: "Crystal Structural Aanlysis of[2Fe-2S]Ferredoxin I from Equistum Arvense at 1.8Å Resolution." Acta Crystallgr.D50. 167-174 (1994)

    • Related Report
      1994 Annual Research Report
  • [Publications] M.Bando et al: "Crystal Structure Analysis of Tobacco Nerosis Virus(TNV)at 5Å Resolution." Acta Crystallgr.D50. 878-883 (1994)

    • Related Report
      1994 Annual Research Report
  • [Publications] 月原冨武: "X線結晶構造解析." 蛋白質・核酸・酵素. 39. 1263-1273 (1994)

    • Related Report
      1994 Annual Research Report
  • [Publications] H.Mizuno et al.: "Crystallization and Preliminary X-ray study of a Double-Shelled Spherical Virus,Rne Dwarf Virus" J.Mol.Biol.219. 665-669 (1991)

    • Related Report
      1993 Annual Research Report
  • [Publications] S.Ikemizu et al: "Crystal Structure Analysis of [2Fe-2S]Ferredoxin from Equisetum arvense at 1.8A resolution" Acta Crystallographica D. (印刷中). (1994)

    • Related Report
      1993 Annual Research Report
  • [Publications] 月原冨武: "分子置換法による球状ウイルスのX線結晶構造解析" 放射光. 6. 37-48 (1993)

    • Related Report
      1993 Annual Research Report
  • [Publications] 福山恵一,月原冨武: "ウイルスの立体構造" バイオサイエンスとインダストリー. 50. 27-32 (1992)

    • Related Report
      1993 Annual Research Report
  • [Publications] 月原冨武 他: "超分子複合体のX線結晶構造解析" 蛋白質核酸酵素. 38. 1247-1253 (1993)

    • Related Report
      1993 Annual Research Report
  • [Publications] 月原冨武: "超分子複合体の構造決定-どこまで大きな分子に迫れるか?" 生物々理. 33. 24-29 (1993)

    • Related Report
      1993 Annual Research Report
  • [Publications] 月原 冨武,森本 幸生,山下 英樹: "超分子複合体のX線結晶構造解析" 蛋白質核酸酵素. (1993)

    • Related Report
      1992 Annual Research Report
  • [Publications] 月原 冨武,福山 恵一: "分子置換法による球状ウイルスのX線結晶構造解析" 放射光. 6. 37-48 (1993)

    • Related Report
      1992 Annual Research Report
  • [Publications] K.Shinzawa-Itoh,H.Yamashita,S.Yoshikawa,Y.Fukumoto,T.Abe and T.Tsukihara: "Single Crystal of Bovine Heart Cytochrome c Oxidase at Fully Oxidized Resting Fully Reduced and CO-bound Fully Reduced States are Isomorphous with Each Other." J.Mol.Biol.228. 987-990 (1992)

    • Related Report
      1992 Annual Research Report
  • [Publications] S.Yoshikawa,K.Shinzawa-Itoh,H.Ueda,T.Tsukihara,T.Kubota,M.Kawamoto,K.Fukuyama and H.Matsubara: "Strategies for Crystallization of Large Membrane Protein Complexes." J.Crystal Growth. 122. 298-302 (1992)

    • Related Report
      1992 Annual Research Report
  • [Publications] 福山 恵一,月原 冨武: "ウイルスの立体構造" バイオサイエンスとインダストリー. 50. 27-30 (1992)

    • Related Report
      1992 Annual Research Report
  • [Publications] Hitoshi Mizuno,Hiromi Kano,Toshihiro Omura,Mika Koizumi,Masahiko Kondoho,Tomitake Tsukihara: "Crystallization and Preliminary Xーray Study of a DoubleーShelled Spherical Virus,Rice Dwarf Virus" J.Mol.Biol.219. 665-669 (1991)

    • Related Report
      1991 Annual Research Report
  • [Publications] Tomitake Tsukihara,Yukio Yokota,Takayuki Koyama,Keiichi Fukuyama,Hiroshi Matsubara: "Symmetry and Subunit Arrangement of Tabacco Necrosis Virus(TNV)" Acta Crystallographica. B46. 855-860 (1990)

    • Related Report
      1991 Annual Research Report
  • [Publications] 福山 恵一,月原 冨武: "ウイルスの立体構造" バイオサイエンスとインダストリ-. 50. 27-32 (1992)

    • Related Report
      1991 Annual Research Report

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Published: 1991-04-01   Modified: 2016-04-21  

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