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Protein crystallization at the porous medium

Research Project

Project/Area Number 23657104
Research Category

Grant-in-Aid for Challenging Exploratory Research

Allocation TypeMulti-year Fund
Research Field Biophysics
Research InstitutionOsaka University

Principal Investigator

MATSUMURA Hiroyoshi  大阪大学, 大学院・工学研究科, 准教授 (30324809)

Project Period (FY) 2011 – 2012
Project Status Completed (Fiscal Year 2012)
Budget Amount *help
¥2,470,000 (Direct Cost: ¥1,900,000、Indirect Cost: ¥570,000)
Fiscal Year 2012: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2011: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Keywords多孔体 / 界面 / たんぱく質 / 結晶化 / 蛋白質
Research Abstract

We investigate the nucleation rate of protein crystals at the interface of solution and porous medium (agarose gel). It was found that 2 ul agarose gel at concentrations of 2.0% (w/v) promoted the number of protein crystals. We also developed a new dispensing system for preparation of the crystallization plates. This technique combined with solution stirring technique improved the crystal quality of a protein complex, thereby solving the crystal structure. The combination with laser irradiation technique demonstrated increase in the nucleation rate. Thus, we propose that a crystallization method using semi-solid agarose is powerful for the screening of crystallization conditions.

Report

(3 results)
  • 2012 Annual Research Report   Final Research Report ( PDF )
  • 2011 Research-status Report
  • Research Products

    (40 results)

All 2013 2012 2011 Other

All Journal Article (26 results) (of which Peer Reviewed: 13 results) Presentation (12 results) Patent(Industrial Property Rights) (2 results) (of which Overseas: 2 results)

  • [Journal Article] 転写制御因子 Tup1-N 末端ドメインのX線結晶構造とその複合体形成メカニズム2013

    • Author(s)
      中村太一、松村浩由、井上豪、日下菜花、田中直子、向由起夫
    • Journal Title

      日本結晶学会誌

      Volume: 55 Pages: 110-115

    • NAID

      10031168499

    • Related Report
      2012 Final Research Report
  • [Journal Article] 転写制御因子Tup1-N末端ドメインのX線結晶構造とその複合体形成メカニズム2013

    • Author(s)
      中村太一、松村浩由、井上豪、日下菜花、田中直子、向由起夫
    • Journal Title

      日本結晶学会誌

      Volume: 55 Pages: 110-115

    • NAID

      10031168499

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Crystal structure of rice Rubisco and implications for activation induced by positive effectors NADPH and 6-phosphogluconate2012

    • Author(s)
      H. Matsumura, E. Mizohata, H. Ishida, A. Kogami, T. Ueno, A. Makino, T. Inoue, A. Yokota, T. Mae, and Y. Kai
    • Journal Title

      J. Mol. Biol

      Volume: 422(1) Pages: 75-86

    • Related Report
      2012 Final Research Report
  • [Journal Article] Crystal structure of the N-terminal domain of the yeast general corepressor Tup1p and its functional implications2012

    • Author(s)
      H. Matsumura, N. Kusaka, T. Nakamura, N. Tanaka, K. Sagegami, K. Uegaki, T. Inoue, and Y. Mukai
    • Journal Title

      J. Biol. Chem

      Volume: 287(32) Pages: 26528-26538

    • Related Report
      2012 Final Research Report
  • [Journal Article] Crystal structure of the superfamily 1 virus helicase domain from tomato mosaic virus2012

    • Author(s)
      M. Nishikiori, S. Sugiyama, H. Xiang, M. Niiyama, K. Ishibashi, S. Nakamura, T. Inoue, M. Ishikawa, H. Matsumura, and E. Katoh
    • Journal Title

      J. Virol

      Volume: 86(14) Pages: 7565-7576

    • Related Report
      2012 Final Research Report
  • [Journal Article] Growth of protein crystals in hydrogels prevents osmotic shocks2012

    • Author(s)
      S. Sugiyama, M. Maruyama, G. Sazaki, M. Hirose, H. Adachi, K. Takano, S. Murakami, T. Inoue, Y. Mori, and H. Matsumura
    • Journal Title

      J. Am. Chem. Soc

      Volume: 134(13) Pages: 5786-5789

    • Related Report
      2012 Final Research Report
  • [Journal Article] Three-dimensional non-invasive, cross-sectional imaging of protein crystals2012

    • Author(s)
      N. Nishizawa, S. Ishida, M. Hirose, S. Sugiyama, T. Inoue, Y. Mori, K. Itoh, and H. Matsumura
    • Journal Title

      Biomed. Opt. Express

      Volume: 3(4) Pages: 735-740

    • Related Report
      2012 Final Research Report
  • [Journal Article] Spatially precise, soft microseeding of single protein crystals by femtosecond laser ablation2012

    • Author(s)
      H. Yoshikawa, Y. Hosokawa, R. Murai, G. Sazaki, T. Kitatani, H. Adachi, T. Inoue, H. Matsumura, K. Takano, S. Murakami, Y.Mori, and H. Masuhara
    • Journal Title

      Cryst. Growth Des

      Volume: 12(9) Pages: 4334-4339

    • Related Report
      2012 Final Research Report
  • [Journal Article] Effects of a forced solution flow on the step advancement on {110} faces of tetragonal lysozyme crystals: direct visualization of individual steps under a forced solution flow2012

    • Author(s)
      M. Maruyama, H. Kawahara, G. Sazaki, S. Maki, Y. Takahashi, H. Y. Yoshikawa, S. Sugiyama, H. Adachi, K. Takano, H. Matsumura, T. Inoue, S. Murakami, and Y. Mori
    • Journal Title

      Cryst. Growth Des

      Volume: 12(6) Pages: 2856-2863

    • Related Report
      2012 Final Research Report
  • [Journal Article] The in silico screening and X-ray structure analysis of the inhibitor complex of Plasmodium falciparum orotidine 5'-monophosphate decarboxylase2012

    • Author(s)
      Y. Takashima, E. Mizohata, S. R. Krungkrai, Y. Fukunishi, T. Kinoshita, T. Sakata, H. Matsumura, J. Krungkrai, T. Horii, and T. Inoue
    • Journal Title

      J. Biochem

      Volume: 152(2) Pages: 133-138

    • NAID

      10031166122

    • Related Report
      2012 Final Research Report
  • [Journal Article] Human hematopoietic prostaglandin D synthase inhibitor complex structures2012

    • Author(s)
      Y. Kado, Y. Okano, N. Okazaki, K. Aritake, N. Uodome, H. Matsumura, Y. Urade, and T. Inoue
    • Journal Title

      J. Biochem

      Volume: 151(4) Pages: 447-455

    • NAID

      10031166083

    • Related Report
      2012 Final Research Report
  • [Journal Article] 固相ハイドロゲル中でのタンパク質結晶化2012

    • Author(s)
      杉山 成、松村浩由、丸山美帆子、佐崎 元、廣瀬未果、安達宏昭、高野和文、村上 聡、井上 豪、森 勇介
    • Journal Title

      日本結晶学会誌

      Volume: 54 Pages: 300-303

    • NAID

      10031129966

    • Related Report
      2012 Final Research Report
  • [Journal Article] 一枚の写真 超高分解能光断層計測を活用し,タンパク質結晶の3次元・非破壊断層イメージングに成功2012

    • Author(s)
      西澤典彦、石田周太郎、松村浩由、廣瀬未果、杉山成、森勇介、井上豪、伊東一良
    • Journal Title

      O plus E、アドコム・メディア

      Pages: 575-576

    • Related Report
      2012 Final Research Report
  • [Journal Article] Crystal structure of rice Rubisco and implications for activation2012

    • Author(s)
      Hiroyoshi Matsumura
    • Journal Title

      J. Mol. Biol.,

      Volume: 422(1) Issue: 1 Pages: 75-86

    • DOI

      10.1016/j.jmb.2012.05.014

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Crystal structure of the N-terminal domain of the yeast general corepressor2012

    • Author(s)
      Hiroyoshi Matsumura
    • Journal Title

      J. Biol. Chem.

      Volume: 287(32) Issue: 32 Pages: 26528-26538

    • DOI

      10.1074/jbc.m112.369652

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Crystal structure of the superfamily 1 helicase from Tomato mosaic virus2012

    • Author(s)
      Masaki Nishikiori
    • Journal Title

      J. Virol.,

      Volume: 12(6) Issue: 14 Pages: 2856-2863

    • DOI

      10.1128/jvi.00118-12

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Growth of protein crystals in hydrogels prevents osmotic shock2012

    • Author(s)
      Shigeru Sugiyama
    • Journal Title

      J. Am. Chem. Soc.,

      Volume: 134(13) Issue: 13 Pages: 5786-5789

    • DOI

      10.1021/ja301584y

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Three-dimensional, non-invasive, cross-sectional imaging of protein crystals using ultrahigh resolution optical coherence tomography2012

    • Author(s)
      N.Nishizawa, S.Ishida, M.Hirose, S.Sugiyama, T.Inoue, Y.Mori, K.Itoh, H.Matsumura
    • Journal Title

      Biomedical Optics Express

      Volume: 3 Issue: 4 Pages: 735-740

    • DOI

      10.1364/boe.3.000735

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Spatially precise, soft microseeding of single protein crystalsby femtosecond laser ablation2012

    • Author(s)
      Hiroshi Yoshikawa
    • Journal Title

      Cryst. Growth Des.,

      Volume: 12(9) Issue: 9 Pages: 4334-4339

    • DOI

      10.1021/cg300018t

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Effects of a forced solution flow on the step advancement on {110} faces of tetragonal lysozyme crystals : direct visualization of individual steps under a forced solution flow2012

    • Author(s)
      M.Maruyama, H.Kawahara, G.Sazaki, S.Maki, Y.Takahashi, H.Y.Yoshikawa, S.Sugiyama, H.Adachi, K.Takano, H.Matsumura, T.Inoue, S.Murakami, and Y.Mori
    • Journal Title

      Crystal Growth & Design

      Volume: Vol.12, Issue 6 Issue: 6 Pages: 2856-2863

    • DOI

      10.1021/cg300025b

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] The in silico screening and X-ray structure analysis of the inhibitor complex of Plasmodium falciparum orotidine 5’-monophosphate decarboxylase2012

    • Author(s)
      Y. Takashima, E. Mizohata, S. R. Krungkrai, Y. Fukunishi, T. Kinoshita, T. Sakata, H. Matsumura, J. Krungkrai, T. Horii, and T. Inoue
    • Journal Title

      J. Biochem.

      Volume: 152 Pages: 133-138

    • NAID

      10031166122

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Human hematopoietic prostaglandin D synthase inhibitor complex structures2012

    • Author(s)
      Yuji Kado
    • Journal Title

      J. Biochem.,

      Volume: 151(4) Issue: 4 Pages: 447-455

    • DOI

      10.1093/jb/mvs024

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] 固体ハイドロゲル中でのタンパク質結晶化2012

    • Author(s)
      杉山成、松村浩由、廣瀬未果、佐崎元、安達宏昭、高野和文、村上聡、丸山美帆子、井上豪、森勇介
    • Journal Title

      日本結晶学会誌

      Volume: 54 Pages: 300-303

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] 一枚の写真 超高分解能光断層計測を活用し,タンパク質結晶の3次元・非破壊断層イメージングに成功2012

    • Author(s)
      西澤典彦、石田周太郎、松村浩由、廣瀬未果、杉山成、森勇介、井上豪、伊東一良
    • Journal Title

      O plus E

      Volume: 34 Pages: 575-576

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Structure basis for the regulation of glyceraldehyde-3-phosphate dehydro genase activity via the intrinsically disordered protein CP122011

    • Author(s)
      H.Matsumura, A.Kai, T.Maeda, M.Tamoi, A.Satoh, H.Tamura, M.Hirose, T.Ogawa, N.Kizu, A.Wadano, T.Inoue, S.Shigeoka
    • Journal Title

      Structure

      Volume: 19 Issue: 12 Pages: 1846-1854

    • DOI

      10.1016/j.str.2011.08.016

    • Related Report
      2011 Research-status Report
    • Peer Reviewed
  • [Journal Article] 天然変性タンパク質による光合成調節の新規分子メカニズム

    • Author(s)
      松村浩由、田茂井政宏、重岡成
    • Journal Title

      化学と生物

      Volume: 50(11) Pages: 786-788

    • Related Report
      2012 Annual Research Report 2012 Final Research Report
  • [Presentation] 超高分解能光断層計測によるタンパク質結晶の無侵襲観察技術2013

    • Author(s)
      松村浩由、石田周太郎、廣瀬未果、杉山成、井上豪、森勇介、伊東一良、西澤典彦
    • Organizer
      日本農芸化学会大会
    • Place of Presentation
      東北大学,仙台
    • Related Report
      2012 Final Research Report
  • [Presentation] カルビン回路酵素 RuBisCO とGAPDH の活性調節機構の解明2013

    • Author(s)
      松村浩由、溝端栄一、木津奈都子、石田宏幸、田茂井政宏、前忠彦、横田明穂、甲斐泰、和田野晃、牧野周、重岡成、井上豪
    • Organizer
      日本植物生理学会大会
    • Place of Presentation
      岡山
    • Related Report
      2012 Final Research Report
  • [Presentation] 超高分解能光断層計測によるタンパク質結晶の無侵襲観察技術2013

    • Author(s)
      松村浩由、石田周太郎、廣瀬未果、杉山成、井上豪、森勇介、伊東一良、西澤典彦
    • Organizer
      日本農芸化学会大会
    • Place of Presentation
      仙台
    • Related Report
      2012 Annual Research Report
  • [Presentation] カルビン回路酵素RuBisCOとGAPDHの活性調節機構の解明2013

    • Author(s)
      松村浩由、溝端栄一、木津奈都子、石田宏幸、田茂井政宏、前忠彦、横田明穂、甲斐泰、和田野晃、牧野周、重岡成、井上豪
    • Organizer
      日本植物生理学会大会
    • Place of Presentation
      岡山
    • Related Report
      2012 Annual Research Report
  • [Presentation] 超高分解能 OCT によるタンパク質結晶の三次元イメージング2012

    • Author(s)
      西澤典彦、石田周太郎、廣瀬未果、杉山成、井上豪、森勇介、伊東一良、松村浩由
    • Organizer
      日本結晶学会年会
    • Place of Presentation
      仙台
    • Related Report
      2012 Final Research Report
  • [Presentation] ウイルススーパーファミリー1 ヘリカーゼ様ドメインの結晶構造解析2012

    • Author(s)
      錦織雅樹、杉山成、相宏宇、新山真由美、石橋和大、石川雅之、松村浩由、加藤悦子
    • Organizer
      日本蛋白質科学会大会
    • Place of Presentation
      名古屋
    • Related Report
      2012 Final Research Report
  • [Presentation] Non-invasive, three-dimensional, cross-sectional imaging of protein crystals grown in gel2012

    • Author(s)
      Norihiko Nishizawa, Shutaro Ishida, Mika Hirose, Shigeru Sugiyama, Tsuyoshi Inoue, Yusuke Mori,Kazuyoshi Itoh, Hiroyoshi Matsumura
    • Organizer
      日本蛋白質科学会大会
    • Place of Presentation
      名古屋
    • Related Report
      2012 Annual Research Report 2012 Final Research Report
  • [Presentation] 超高分解能OCTによるタンパク質結晶の三次元イメージング2012

    • Author(s)
      西澤典彦, 石田周太郎,廣瀬未果, 杉山成, 井上豪, 森勇介, 伊東一良, 松村浩由
    • Organizer
      日本結晶学会年会
    • Place of Presentation
      仙台
    • Related Report
      2012 Annual Research Report
  • [Presentation] ウイルススーパーファミリー1ヘリカーゼ様ドメインの結晶構造解析2012

    • Author(s)
      錦織雅樹、杉山成、相宏宇、新山真由美、石橋和大、石川雅之、松村浩由、加藤悦子
    • Organizer
      日本蛋白質科学会大会
    • Place of Presentation
      名古屋
    • Related Report
      2012 Annual Research Report
  • [Presentation] Structural basis for the sequential assembly of photosynthetic multienzyme complex2011

    • Author(s)
      Hiroyoshi Matsumura, Akihiro Kai, Takayuki Maeda, Masahiro Tamoi, Mika Hirose, Natsuko Kizu, Akira Wadano, Tsuyoshi Inoue, Shigeru Shigeoka
    • Organizer
      XX11 Congress and General Assembly, International Union of Crystallography(招待講演)
    • Place of Presentation
      Madrid
    • Related Report
      2011 Research-status Report
  • [Presentation] 医薬品開発に貢献するタンパク質結晶化技術の開発2011

    • Author(s)
      松村浩由
    • Organizer
      平成23年度 JSTイノベーションプラザ大阪 成果報告会(招待講演)
    • Place of Presentation
      大阪
    • Related Report
      2011 Research-status Report
  • [Presentation] Protein crystallization in semi-solid agarose gel for the development of medicines2011

    • Author(s)
      松村浩由
    • Organizer
      BioJapan2010,化学素材研究開発振興財団記念基金グラント研究奨励金発表会(招待講演)
    • Place of Presentation
      横浜
    • Related Report
      2011 Research-status Report
  • [Patent(Industrial Property Rights)] METHOD FOR OBSERVING PROTEIN CRYSTAL2012

    • Inventor(s)
      西澤典彦、松村浩由、他9名
    • Industrial Property Rights Holder
      西澤典彦、松村浩由、他9名
    • Filing Date
      2012-11-22
    • Related Report
      2012 Final Research Report
    • Overseas
  • [Patent(Industrial Property Rights)] METHOD FOR OBSERVING PROTEIN CRYSTAL2012

    • Inventor(s)
      西澤典彦、松村浩由、他9名
    • Industrial Property Rights Holder
      西澤典彦、松村浩由、他9名
    • Industrial Property Rights Type
      特許
    • Filing Date
      2012-11-22
    • Related Report
      2012 Annual Research Report
    • Overseas

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Published: 2011-08-05   Modified: 2019-07-29  

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