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Single-molecule characterization of target DNA search of tumor suppressor p53

Research Project

Project/Area Number 26840045
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field Biophysics
Research InstitutionTohoku University

Principal Investigator

Kamagata Kiyoto  東北大学, 多元物質科学研究所, 助教 (90432492)

Research Collaborator SUGIYAMA HIROSHI  京都大学, 大学院理学研究科, 教授 (50183843)
ENDO MASAYUKI  京都大学, 物質-細胞統合システム拠点, 准教授 (70335389)
Project Period (FY) 2014-04-01 – 2016-03-31
Project Status Completed (Fiscal Year 2015)
Budget Amount *help
¥3,900,000 (Direct Cost: ¥3,000,000、Indirect Cost: ¥900,000)
Fiscal Year 2015: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Fiscal Year 2014: ¥2,210,000 (Direct Cost: ¥1,700,000、Indirect Cost: ¥510,000)
Keywords蛋白質 / DNA / 1分子計測 / 1分子計測(SMD) / 遺伝子 / 単分子計測 / 天然変性蛋白質 / 探索 / 結合
Outline of Final Research Achievements

p53 can preventDNA. the cancer of a living cell by binding to a part of DNA (target). In this study, we investigated the mechanism in which p53 searches and binds to the target and the role of disordered region of p53. We measured the movement of p53 along DNA. We found that p53 has a low target recognition probability(TRP) and regulates TRP by posttransmodifications of p53. Furhtermore, we found that elongation of the disordered region of p53 caused the loss of specific binding to DNA.

Report

(3 results)
  • 2015 Annual Research Report   Final Research Report ( PDF )
  • 2014 Research-status Report
  • Research Products

    (37 results)

All 2016 2015 2014 Other

All Int'l Joint Research (1 results) Journal Article (4 results) (of which Peer Reviewed: 4 results,  Open Access: 1 results,  Acknowledgement Compliant: 2 results) Presentation (32 results) (of which Int'l Joint Research: 3 results,  Invited: 10 results)

  • [Int'l Joint Research] University of California, Los Angeles(米国)

    • Related Report
      2015 Annual Research Report
  • [Journal Article] Single-molecule Characterization of Sliding Dynamics of Tumor Suppressor p53 along DNA2016

    • Author(s)
      村田崇人、伊藤優志、鎌形清人
    • Journal Title

      Seibutsu Butsuri

      Volume: 56 Issue: 2 Pages: 109-111

    • DOI

      10.2142/biophys.56.109

    • NAID

      130005140949

    • ISSN
      0582-4052, 1347-4219
    • Related Report
      2015 Annual Research Report
    • Peer Reviewed
  • [Journal Article] One-dimensional sliding of p53 along DNA is accelerated in the presence of Ca(2+) or Mg(2+) at millimolar concentrations2015

    • Author(s)
      Murata A, Ito Y, Kashima R, Kanbayashi S, Nanatani K, Igarashi C, Okumura M, Inaba K, Tokino T, Takahashi S, Kamagata K
    • Journal Title

      JOURNAL OF MOLECULAR BIOLOGY

      Volume: 427 Issue: 16 Pages: 2663-2678

    • DOI

      10.1016/j.jmb.2015.06.016

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Complexity of the folding transition of the B domain of protein A revealed by the high-speed tracking of single-molecule fluorescence time series2015

    • Author(s)
      Hiroyuki Oikawa, Kiyoto Kamagata, Munehito Arai, Satoshi Takahashi
    • Journal Title

      J. Phys. Chem. B

      Volume: 119 Issue: 20 Pages: 6081-6091

    • DOI

      10.1021/acs.jpcb.5b00414

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Where the complex things are: single molecule andensemble spectroscopic investigations of protein folding dynamics2015

    • Author(s)
      Satoshi Tkahahshi, Kiyoto Kamagata, Hiroyuki Oikawa
    • Journal Title

      Current Opinion in Structural Biology

      Volume: 36 Pages: 1-9

    • DOI

      10.1016/j.sbi.2015.11.006

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Presentation] Direct observation of target DNA recognition of p53 mutants by single-molecule fluorescence microscopy2016

    • Author(s)
      Itoh, Yuji, Agato Murata, Seiji Sakamoto, Kei Nanatani, Chihiro Igarashi, Takehiko Wada, Satoshi Takahashi, Kiyoto Kamagata
    • Organizer
      日本化学会第96春季年会
    • Place of Presentation
      京都
    • Year and Date
      2016-03-24
    • Related Report
      2015 Annual Research Report
  • [Presentation] Direct observation of target DNA recognition of p53 mutants by single-molecule fluorescence microscopy2016

    • Author(s)
      Itoh, Yuji, Agato Murata, Seiji Sakamoto, Kei Nanatani, Chihiro Igarashi, Takehiko Wada, Satoshi Takahashi, Kiyoto Kamagata
    • Organizer
      天然変性タンパク質計算化学研究会
    • Place of Presentation
      静岡
    • Year and Date
      2016-01-07
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] 一分子蛍光顕微鏡によるp53の標的DNA認識の直接観察2015

    • Author(s)
      伊藤優志、村田崇人、坂本清志、七谷圭、和田健彦、高橋聡、鎌形清人
    • Organizer
      生物物理学会東北支部会
    • Place of Presentation
      仙台
    • Year and Date
      2015-12-18
    • Related Report
      2015 Annual Research Report
  • [Presentation] DNA結合蛋白質の機能解析のためのDNA整列固定法「DNAガーデン」の開発2015

    • Author(s)
      五十嵐千裕, 村田崇人, 伊藤優志, 高橋聡, 鎌形清人
    • Organizer
      アライアンス若手交流会
    • Place of Presentation
      福岡
    • Year and Date
      2015-11-16
    • Related Report
      2015 Annual Research Report
  • [Presentation] DNA結合蛋白質の機能解析のためのDNA整列固定法「DNAガーデン」の開発2015

    • Author(s)
      鎌形清人
    • Organizer
      2015アライアンスG3分科会
    • Place of Presentation
      大阪
    • Year and Date
      2015-11-12
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] Observation of the Search Dynamics of p53 Mutants for the Target DNA Sequence by Single-molecule Fluorescence Microscopy2015

    • Author(s)
      Yuji Itoh, Agato Murata, Seiji Sakamoto, Kei Nanatani, Takehiko Wada, Satoshi Takahasi, Kiyoto Kamagata
    • Organizer
      Tohoku University's Chemistry Summer School 2015
    • Place of Presentation
      仙台
    • Year and Date
      2015-09-16
    • Related Report
      2015 Annual Research Report
  • [Presentation] Target search process of a tumor suppressor p53 revealed by single-molecule fluorescence microscopy2015

    • Author(s)
      Kiyoto Kamagata
    • Organizer
      The 53rd Annual Meeting of the Biophysical Society of Japan
    • Place of Presentation
      金沢
    • Year and Date
      2015-09-13
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Observation of the Search Dynamics of p53 Mutants for the Target DNA Sequence by Single-molecule Fluorescence Microscopy2015

    • Author(s)
      Yuji Itoh, Agato Murata, Seiji Sakamoto, Kei Nanatani, Takehiko Wada, Satoshi Takahashi, Kiyoto Kamagata
    • Organizer
      The 53rd Annual Meeting of the Biophysical Society of Japan
    • Place of Presentation
      金沢
    • Year and Date
      2015-09-13
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 一分子蛍光観測法によるがん抑制蛋白質p53のスライディング運動の解明2015

    • Author(s)
      村田崇人, 伊藤優志, 五十嵐千裕, Dwiky Subekti Rendra Graha, 高橋聡, 鎌形清人
    • Organizer
      The 53rd Annual Meeting of the Biophysical Society of Japan
    • Place of Presentation
      金沢
    • Year and Date
      2015-09-13
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] がん抑制蛋白質p53の標的DNA配列探索運動の単分子蛍光観測2015

    • Author(s)
      鎌形清人
    • Organizer
      第3回生体分子サイエンスセミナー
    • Place of Presentation
      神奈川
    • Year and Date
      2015-08-31
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] 単分子蛍光顕微鏡によるがん抑制蛋白質p53の標的DNA探索過程の観察2015

    • Author(s)
      鎌形清人
    • Organizer
      金沢大学理工研究域&バイオAFM先端研究センターセミナー
    • Place of Presentation
      金沢
    • Year and Date
      2015-08-20
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] Target DNA search of a tumor suppressor p53 revealed by single-molecule fluorescence microscopy2015

    • Author(s)
      Agato Murata, Yuji Itoh, Chihiro Igarasi, Satoshi Takahashi, Kiyoto Kamagata
    • Organizer
      KAKENHI International Symposium on "Studying the Function of Soft Molecular Systems"
    • Place of Presentation
      東京
    • Year and Date
      2015-07-09
    • Related Report
      2015 Annual Research Report
  • [Presentation] Investigation of the Role of Intrinsically Disordered Region in p53 Using Single Molecule Fluorescence Microscopy2015

    • Author(s)
      Dwiky Rendra Graha Subekti, Agato Murata, Chihiro Igarashi, Yuji Ito, Satoshi Takahashi, Kiyoto Kamagata
    • Organizer
      第15回日本蛋白質科学会年会
    • Place of Presentation
      徳島
    • Year and Date
      2015-06-24
    • Related Report
      2015 Annual Research Report
  • [Presentation] 一分子蛍光観測法によるがん抑制蛋白質p53のスライディング運動の解明2015

    • Author(s)
      村田崇人, 伊藤優志, 五十嵐千裕, 高橋聡, 鎌形清人
    • Organizer
      第15回日本蛋白質科学会年会,
    • Place of Presentation
      徳島
    • Year and Date
      2015-06-24
    • Related Report
      2015 Annual Research Report
  • [Presentation] 一分子蛍光顕微鏡によるp53変異体の標的配列探索ダイナミクスの観察2015

    • Author(s)
      伊藤優志, 村田崇人, 坂本清志, 七谷圭, 和田健彦, 高橋聡, 鎌形清人
    • Organizer
      第15回日本蛋白質科学会年会,
    • Place of Presentation
      徳島
    • Year and Date
      2015-06-24
    • Related Report
      2015 Annual Research Report
  • [Presentation] 一分子蛍光観測法によるがん抑制蛋白質p53のスライディング運動の解明2015

    • Author(s)
      村田崇人・伊藤優志・五十嵐千裕・鹿島理沙・時野隆至・高橋聡・鎌形清人
    • Organizer
      本化学会第95春季年会
    • Place of Presentation
      船橋市
    • Year and Date
      2015-03-26 – 2015-03-29
    • Related Report
      2014 Research-status Report
  • [Presentation] 一分子蛍光顕微鏡によるp53変異体の標的配列探索ダイナミクスの観察2015

    • Author(s)
      伊藤優志・村田崇人・坂本清志・七谷圭・和田健彦・高橋聡・鎌形清人
    • Organizer
      日本化学会第95春季年会
    • Place of Presentation
      船橋市
    • Year and Date
      2015-03-26 – 2015-03-29
    • Related Report
      2014 Research-status Report
  • [Presentation] DNA結合蛋白質の単分子蛍光観察のためのDNA整列技術の開発2015

    • Author(s)
      五十嵐千裕・村田崇人・高橋聡・鎌形清人
    • Organizer
      日本化学会第95春季年会
    • Place of Presentation
      船橋市
    • Year and Date
      2015-03-26 – 2015-03-29
    • Related Report
      2014 Research-status Report
  • [Presentation] 単分子蛍光観察によるがん抑制蛋白質の標的配列探索問題2015

    • Author(s)
      鎌形清人
    • Organizer
      第3回天然変性蛋白質計算科学セミナー
    • Place of Presentation
      御殿場市
    • Year and Date
      2015-03-10 – 2015-03-12
    • Related Report
      2014 Research-status Report
    • Invited
  • [Presentation] Target search process of a tumor suppressor p53 revealed by single-molecule fluorescence microscopy2015

    • Author(s)
      鎌形清人
    • Organizer
      北海道大学電子科学研究所小松崎研究室セミナー
    • Place of Presentation
      札幌市
    • Year and Date
      2015-01-23
    • Related Report
      2014 Research-status Report
    • Invited
  • [Presentation] 一分子蛍光観測法による癌抑制蛋白質p53の標的配列探索機構の解明2014

    • Author(s)
      村田崇人、伊藤優志、Dwiky Subekti Rendra Graha、五十嵐千裕、高橋聡、鎌形清人
    • Organizer
      新学術研究「柔らかな分子系」第2回公開シンポジウム
    • Place of Presentation
      豊中市
    • Year and Date
      2014-11-28 – 2014-11-29
    • Related Report
      2014 Research-status Report
  • [Presentation] 単分子蛍光観察による癌抑制蛋白質p53 の標的配列探索機構の解明2014

    • Author(s)
      鎌形清人
    • Organizer
      広島大学クロマチン動態数理研究拠点
    • Place of Presentation
      東広島市
    • Year and Date
      2014-11-28
    • Related Report
      2014 Research-status Report
    • Invited
  • [Presentation] Observation of the Search Dynamics of p53 for the Targent DNA Sequence by Single-molecule Fluorescence Microscopy2014

    • Author(s)
      Yuji Itoh、Agato Murata, Seiji Sakamoto, Takehiko Wada, Satoshi Takahasi, and Kiyoto Kamagata
    • Organizer
      第52回日本生物物理学会年会
    • Place of Presentation
      札幌市
    • Year and Date
      2014-09-25 – 2014-09-27
    • Related Report
      2014 Research-status Report
  • [Presentation] Investigation of DNA search mechanism of tumor suppressor p532014

    • Author(s)
      Agato Murata, Yuji Itoh, Dwiky Subekti Rendra Graha, Chihiro Igarashi, Satoshi Takahashi and Kiyoto Kamagata
    • Organizer
      第52回日本生物物理学会年会
    • Place of Presentation
      札幌市
    • Year and Date
      2014-09-25
    • Related Report
      2014 Research-status Report
  • [Presentation] 単分子蛍光観察による癌抑制蛋白質p53 の標的配列探索機構の解明2014

    • Author(s)
      鎌形清人
    • Organizer
      RNAインフォマティックス道場in 札幌
    • Place of Presentation
      札幌市
    • Year and Date
      2014-08-25 – 2014-08-26
    • Related Report
      2014 Research-status Report
    • Invited
  • [Presentation] Observation of the Search Dynamics of p53 for the Targent DNA Sequence by Single-molecule Fluorescence Microscopy2014

    • Author(s)
      Yuji Itoh, Agato Murata, Seiji Sakamoto, Takehiko Wada, Satoshi Takahasi, and Kiyoto Kamagata
    • Organizer
      東北大学化学系サマースクール2014
    • Place of Presentation
      仙台市
    • Year and Date
      2014-08-25 – 2014-08-26
    • Related Report
      2014 Research-status Report
  • [Presentation] 癌抑制蛋白質p53のDNA探索機構の研究2014

    • Author(s)
      村田崇人・伊藤優志・Dwiky Subekti Rendra Graha・鹿島理沙・時野隆志・高橋聡・鎌形清人
    • Organizer
      第14回日本蛋白質科学会年会
    • Place of Presentation
      横浜市
    • Year and Date
      2014-06-25 – 2014-06-27
    • Related Report
      2014 Research-status Report
  • [Presentation] タンパク質単分子の構造変化を計測する暗視野顕微鏡の開発2014

    • Author(s)
      鎌形清人・間野絵梨子・七谷圭・阿蘇裕樹・井上裕一・小井川浩之・高橋聡
    • Organizer
      第14回日本蛋白質科学会年会
    • Place of Presentation
      横浜市
    • Year and Date
      2014-06-25 – 2014-06-27
    • Related Report
      2014 Research-status Report
  • [Presentation] Target Search Process of A Tumor Suppressor p53 Revealed by Single-Molecule Fluorescence Microscopy2014

    • Author(s)
      Murata A., Itoh, Y., Kashima, R., Tokino, T., Takahashi, S., Kamagata, K.
    • Organizer
      The 16th international p53 workshop
    • Place of Presentation
      Stockholm, Sweden
    • Year and Date
      2014-06-15 – 2014-06-19
    • Related Report
      2014 Research-status Report
  • [Presentation] 一分子蛍光観測法による癌抑制蛋白質p53のDNA探索機構の研究2014

    • Author(s)
      村田崇人、伊藤優志、Dwiky Subekti Rendra Graha、高橋聡、鎌形清人
    • Organizer
      新学術領域「柔らかな分子系」第3回全体会議
    • Place of Presentation
      北杜市
    • Year and Date
      2014-06-03 – 2014-06-05
    • Related Report
      2014 Research-status Report
  • [Presentation] 単分子蛍光観測で解き明かすがん抑制タンパク質p53 のターゲット探索問題2014

    • Author(s)
      鎌形清人
    • Organizer
      シンポジウム「DNA上のタンパク質の動き」
    • Place of Presentation
      京都市
    • Year and Date
      2014-05-31
    • Related Report
      2014 Research-status Report
    • Invited
  • [Presentation] 単分子蛍光計測によるがん抑制蛋白質p53のDNA探索機構の解明2014

    • Author(s)
      鎌形清人
    • Organizer
      附置研究所間アライアンスによるナノとマクロをつなぐ物質・デバイス・システム創製戦略プロジェクト 平成25年度 成果報告会
    • Place of Presentation
      豊中市
    • Year and Date
      2014-05-30
    • Related Report
      2014 Research-status Report

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Published: 2014-04-04   Modified: 2022-01-27  

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