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1999 Fiscal Year Final Research Report Summary

Structural Studies of Molecular Recognition by Proteins : X-ray Analyses of Complex Crystals

Research Project

Project/Area Number 09308025
Research Category

Grant-in-Aid for Scientific Research (A)

Allocation TypeSingle-year Grants
Section一般
Research Field Biophysics
Research InstitutionNara Institute of Science and Technology

Principal Investigator

HAKOSHIMA Toshio  Department of Molecular Biology, Nara Institute of Science and Technology, Professor, バイオサイエンス研究科, 教授 (00164773)

Co-Investigator(Kenkyū-buntansha) SHIMIZU Toshiyuki  Department of Molecular Biology, Nara Institute of Science, Research Associate, バイオサイエンス研究科, 助手 (30273858)
Project Period (FY) 1997 – 1999
Keywordstranscription / signal transduction / G protein / protein / DNA / molecular complex / X-ray / structural biology
Research Abstract

Crystal structures of three transcription factor/DNA complexes, PHO4/DNA, IRF-2/DNA and Pap1/DNA, were determined. Based on these structures, molecular mechanisms of base recognition by these proteins were elucidated. In the mammalian signaling pathways, crystal structures of the small G protein RhoA in the GTPγS-MgィイD12+ィエD1 bound from and its complex with the effector protein PKN were determined. The structures reveals Rho-specific switching mechanisms and its recognition of the effector protein. Moreover, crystal structures of the thioredoxin-peroxidase HBP23 and a hippocampal serine protease, neuropsin, were determined. In the bacterial His-Asp phosphorelay signaling pathways, crystal structures of the HPt domain of a sensor kinase ArcB and its protein phosphatase SixA were determined.

  • Research Products

    (54 results)

All Other

All Publications (54 results)

  • [Publications] A. Toumoto: "Preliminary X-ray studies on a new crystal form"Acta Crystallogr.. D53. 103-104 (1997)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] M. Kato: "Insights into multi step phosphorelay"Cell. 88. 717-723 (1997)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] T. Kishi: "Crystallization and Preliminary X-ray Analysis"J. Struct. Biol.. 118. 248-251 (1997)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] T. Shimizu: "Crystal structure of PH04 bHLH domain"EMBO J.. 16. 4689-4697 (1997)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] S. Kuge: "Use of fusion protein to obtain"Protein Sci.. 6. 1783-1786 (1997)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] H. Yaku: "Interaction between the CheY response"FEBS Lett.. 408. 337-340 (1997)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] M. Kato: "Crystallization and Preliminary X-ray"Acta Crystallogr.. D54. 140-142 (1998)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] K. Ihara: "Crystal structure of human Rho A"J. Biol. Chem.. 273. 9656-9666 (1998)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] M. Kusumoto: "Crystallographic characterization of the DNA"J. Struct. Biol.. 121. 363-366 (1998)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Y. Fujii: "Crystallographic characterization of Pap1-DNA"Acta Crystallogr.. D54. 1014-1016 (1998)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] K. Hamada: "Crystallographic characterization of novel protein"Acta Crystallogr.. D55. 269-271 (1998)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Y. Sugimoto: "Dechloroalutumine from cultured"Phytochemistry. 49. 1293-1297 (1998)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] T. Kishi: "Crystal structure of neuropsin"J. Biol. Chem.. 274. 4220-4224 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] M. Kato: "The crystal structure of the histidine"Pro. Natl. Acad. Sci. USA. D55. 1257-1263 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] S. Hirotsu: "Crystal structure of a stress-induced"EMBO J.. 96. 12333-12338 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Y. Fujii: "Crystal structure of an IRF/DNA complex"18. 5028-5041 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] R. Maesaki: "Biochemical and crystallographic"J. Struct. Biol.. 126. 166-170 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] R. Maesaki: "The structural basis of Rho effector"Molecular Cell. 4. 793-803 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] 箱嶋敏雄: "構造生物学とその解析法"日本生物物理学会. 192 (1997)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] 箱嶋敏雄: "第13回 大学と科学公開シンポジウム予稿集"「大学と科学」公開シンポジウム組織委員会. 50 (1998)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] 箱嶋敏雄: "遺伝子産物(タンパク質)の形を観る"「大学と科学」公開シンポジウム組織委員会. 197 (1999)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Toumoto,A., Shimizu,T., Shimizu,M., Kyogoku,Y., Ogawa,N., Oshima,Y. and Hakoshima,T.: "Preliminary X-ray studies on a new crystal form of PHO4-DNA complex"Acta Crystallogr.. D53(1). 103-104 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Kato,M., Mizuno,T., Shimizu,T. and Hakoshima,T.: "Insights into multi step phosphorelay from the crystal structure of the C-terminal HPt domain of ArcB"Cell. 88(5). 717-723 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Kishi,T., Kato,M., Shimizu,T., Kato,K., Matsumoto,K., Yoshida,S., Shiosaka,S. and Hakoshima,T.: "Crystallization and Preliminary X-ray Analysis of a serine protease expressed in the limbic system of brain, Neuropsin"J. Struct. Biol.. 118(3). 248-251 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Shimizu,T., Toumoto,A., Shimizu,M., Kyogoku,Y., Ogawa,N., Oshima,Y. and Hakoshima,T.: "Crystal structure of PHO4bHLH domain-DNA complex : Flanking base recognition"EMBO J.. 16(15). 4689-4697 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Kuge,S., Fujii,Y., Shimizu,T., Hirose,F., Matsukage,A. and Hakoshima,T.: "Use of a fusion protein to obtain well-ordered crystals suitable for X-ray analysis : crystallization of a GST fusion protein containing the DNA-binding domain of DNA replication related element-binding factor, DREF"Protein Sci.. 6(8). 1783-1786 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Yaku,H., Kato,M., Hakoshima,T. and Mizuno,T.: "Interaction between the CheY response regulator and the histidine-containing phosphotransfer (HPt) domain of the ArcB sensor kinase in Escherichia coli"FEBS Lett.. 408(3). 337-340 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Shimizu,T., Toumoto,A., Shimizu,M., Kyogoku,Y., Ogawa,N., Oshima,Y. and Hakoshima,T.: "Crystal structure of PHO4 bHLH domain-DNA complex"Photon Factory Activity Report. 14. 397 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Kato,M., Mizuno,T., and Hakoshima,T.: "Crystallization and Preliminary X ray Analysis of the chemotaxis response regulator CheY complexed with the HPt Domain of the Anaerobic Sensor Protein ArcB"Acta Crystallogr. D. Biol. Crystallogr.. 54(1). 140-142 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Ihara,K., Muraguchi,S., Kato,M., Shimizu,T., Kuroda,S., Kaibuchi,K., and Hakoshima,T.: "Crystal structure of human RhoA in a dominantly active form complexed with GTP analogue"J. Biol. Chem.. 273(16). 9656-9666 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Kusumoto,M., Fujii,Y., Tsukuda,Y., Ohhira,T., Uegaki,K., Kyougoku,Y., Taniguchi,T., and Hakoshima,T.: "Crystallographic characterization of the DNA binding domain of interferon regulatory factor-2 complexed with DNA"J. Struct. Biol.. 121(3). 363-366 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Fujii,Y., Ohira,T., Kyougoku,Y., Toda,T., Yanagida,M., and Hakoshima,T.: "Crystallographic characterization of Pap1-DNA complex"Acta Crystallogr. D. Biol. Crystallogr.. 54(5). 1014-1016 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Ueno,A., Ohashi,H., Nakano,T., Kimura,K., Shimizu,T., Hakoshima,T., and Iijima,H.: "Crystal structure of sulochrin derivatives"Chem. Pharm. Bull.. 46(12). 1929-1931 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Sugimoto,Y., Kato,M., Shimizu,T., Hakoshima,T., and Isogai,A.: "Dechloroacutumine from cultured roots of Menispermum Dauricum"Phytochemistry. 49(5). 1293-1297 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Kishi,T., Kato,M., Shimizu,T., Kato,K., Matsumoto,K., Yoshida,S., Shiosaka,S., and Hakoshima,T.: "Crystal structure of neuropsin, a serine protease expressed in the limbic system of brain"Photon Factory Activity Report. B15. 29 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Hamada,K., Kato,M., Mizuno,T., and Hakoshima,T.: "Crystallographic characterization of a novel protein SixA that exhibits phospho-histidine phosphatase activity in the multistep His-Asp phosphorelay"Acta Crystallogr. D, Biol. Crystallogr.. 55(1). 269-271 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Kishi,T., Kato,M., Shimizu,T., Kato,K., Matsumoto,K., Yoshida,S., Shiosaka,S., and Hakoshima,T.: "Crystal structure of neuropsin, a hippocampal protease involved in kindling epileptogenesis"J. Biol. Chem.. 274(7). 4220-4224 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Kato,M., Mizuno,T., Shimizu,T., and Hakoshima,T.: "The crystal structure of the histidine containing phosphotransfer (HPt) domain of the anaerobic sensor kinase ArcB complexed with the chemotaxis response regulator CheY"Acta Crystallogr. D, Biol. Crystallogr.. 55(7). 1257-1263 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Kato,M., Mizuno,T., Shimizu,T., and Hakoshima,T.: "The refined crystal structure of the histidine-containing phosphotransfer (HPt) domain of the anaerobic sensor kinase ArcB from Escherichia coli. at 1.57A resolution"Acta Crystallogr. D, Niol. Crystallogr.. 55(11). 1842-1849 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Takahashi,N., Tsukamoto,Y., Shiosaka,S., Hakoshima,T., Arata,Y., Yamaguchi,Y., Kato,K., and Shimada,I.: "N-Glycan structure of murine hippocampus serine protease, neuropsin, produced in Trichoplusia ni cells"Glycoconjugate J.. 16. 405-414 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Hirotsu,S., Abe,Y., Iwahara,S., Hori,H., Nishino,T., Okada,K., and Hakoshima,T.: "Crystallographic characterization of a stress-induced multifunctional protein, rat HBP23"J. Struct. Biol.. 126(1). 80-83 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Hirotsu,S., Abe,Y., Okada,K., Nagahara,N., Hori,H., Nishino,T., and Hakoshima,T.: "Crystal structure of a stress-induced multifunctional 2-Cys peroxiredoxin, heme-binding protein 23kDa/proliferation-associated gene product"Proc. Natl. Acad. Sci. USA. 96(22). 12333-12338 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Fujii,Y., Shimizu,T., Kusumoto,M., Tsukuda,Y., Ohhira,T., Uegaki,K., Kyougoku,Y., Taniguchi,T. and Hakoshima,T.: "Crystal structure of an IRF/DNA complex reveals a novel DNA recognition and cooperactive binding to a tandem repeat of the core sequence"EMBO J.. 18(18). 5028-5041 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Tomita,K., Ohishi,H., Nakanishi,I., Hakoshima,T., and Rich,A.: "Interaction between the left handed Z-DNA and polyamine -3 : The Crystal structure of a left handed Z-DNA hexisamer, d(CG)3, duplex complexed with synthetic polyamine reveals binding a polyamine in the minor groove"Nucleosides & Nucleotides. 18(6&7). 1567-1569 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Maesaki,R., Shimizu,T., Ihara,K., Kuroda,S., Kaibuchi,K. and Hakoshima,T.: "Biochemical and crystallographic characterization of a Rho effector domain of the protein serine/threonine kinase N in a complex with RhoA"J. Struct. Biol.. 126(2). 166-170 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Maesaki,R., Ihara,K., M., Shimizu,T., Kuroda,S., Kaibuchi,K., and Hakoshima,T.: "The structural basis of Rho effector recognition revealed by the Crystal structure of human RhoA complexed with the effector domain of PKN/PRK1"Molecular Cell. 4(5). 793-803 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Fujii,Y., Shimizu,T., Kusumoto,M., Tsukuda,Y., Ohhira,T., Uegaki,K., Kyougoku,Y., Taniguchi,T. and Hakoshima,T.: "Crystal structure of an IRF/DNA complex reveals a novel DNA recognition and coopperactive binding to a tandem repeat of the core sequence"Photon Factory Activity Report. B16. 261 (1999)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] A.Toumoto, T.Shimizu, M.Shimizu, Y.Kyogoku, N.Ogawa, Y.Oshima & T.Hakoshima: "Preliminary X-ray studies on a new crystal form of PHO4-DNA complex"Acta Crystallogr.. D53(1). 103-104 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] M.Kato, T.Mizuno, T.Shimizu, & T.Hakoshima: "Insights into multi-step phosphorelay from the crystal structure of the C-terminal HPt domain of ArcB"Cell. 88(5). 717-723 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] T.Kishi, M.Kato, T.Shimizu, K.Kato, K.Matsumoto, S.Yoshida, S.Shiosaka & T.Hakoshima: "Crystallization and preliminary x-ray analysis of a serine protease expressed in the limbic system of brain, neuropsin"J. Struct. Biol.. (in the press). (1997)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] T.Shimizu, A.Toumoto, M.Shimizu, Y.Kyogoku, N.Ogawa, Y.Oshima & T.Hakoshima: "Crystal structure of PHO3 bHLH domain-DNA complex : Flanking base recognition"EMBO J.. 16, (in press). (1997)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] H.Yaku, M.Kato, & T.Hakoshima, T.Mizuno: "Interaction between the CheY response regulator and the histidine-containing phosphotransfer (HPt) domain of the ArcB sensor kinase in Escherichia coli"FEBS Lett.. (in press). (1997)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] S.Kuge, Y.Fujii, T.Simizu, F.Hirose, A.Matsukage & T.Hakoshima: "Use of a fusion protein to obtain well-ordered crystals suitable for X-ray analysis : crystallization of a GST fusion protein containing the DNA-binding domain of DNA replication related element-binding factor, DREF"Prot. Sci.. 6, (in press). (1997)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] M.Kato, T.Mizuno & T.Hakoshima: "Crystallization and Preliminary X-ray Analysis of the chemotaxis response regulator CheY complexed with the HPt Domain of the Anaerobic Sensor Protein ArcB"Acta Crystallogr.. D53, (in press). (1997)

    • Description
      「研究成果報告書概要(欧文)」より

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Published: 2001-10-23  

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