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Single-molecule direct visualization of DNA repair proteins on chromatin

Research Project

Project/Area Number 24570182
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Biophysics
Research InstitutionThe Graduate School for the Creation of New Photonics Industries (2013-2014)
Kyoto University (2012)

Principal Investigator

YOKOTA Hiroaki  光産業創成大学院大学, 光産業創成研究科, 准教授 (90415547)

Co-Investigator(Renkei-kenkyūsha) SUGASAWA Kaoru  神戸大学, 自然科学系先端融合研究環バイオシグナル研究センター, 教授 (70202124)
IWAI Shigenori  大阪大学, 基礎工学研究科, 教授 (10168544)
Project Period (FY) 2012-04-01 – 2015-03-31
Project Status Completed (Fiscal Year 2014)
Budget Amount *help
¥5,460,000 (Direct Cost: ¥4,200,000、Indirect Cost: ¥1,260,000)
Fiscal Year 2014: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Fiscal Year 2013: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Fiscal Year 2012: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
KeywordsDNA損傷・修復 / タンパク質 / 核酸の構造 / 動態 / 機能
Outline of Final Research Achievements

To elucidate how mammalian (human) DNA repair proteins recognize base lesions, we performed single-molecule direct visualization of the proteins on DNA. We found that XPC-RAD23B protein complex, which is known to be responsible for damage recognition in mammalian nucleotide excision repair, has high affinity for a lesion and performed one-dimensional bidirectional diffusion on undamaged DNA. The diffusion coefficients of the movement indicate that the protein complex does not always perform rotational tracking of the helical pitch of the DNA while moving along DNA and thus diffuses at much higher rates. The obtained results indicate that the protein complex uses these binding modes for efficient search of DNA lesions scattered throughout the genome from a vast excess of normal bases.

Report

(4 results)
  • 2014 Annual Research Report   Final Research Report ( PDF )
  • 2013 Research-status Report
  • 2012 Research-status Report
  • Research Products

    (18 results)

All 2014 2013 2012 Other

All Journal Article (5 results) (of which Peer Reviewed: 5 results) Presentation (12 results) (of which Invited: 6 results) Remarks (1 results)

  • [Journal Article] Construction and Characterization of Cy3- or Cy5-Conjugated Hairpin Pyrrole / Imidazole Polyamide Binding to DNA in the Nucleosome2014

    • Author(s)
      Han, Y-W.; Tsunaka, Y.; Yokota, H.; Matsumoto, T.; Kashiwazaki, G.; Morinaga, H.; Hashiya, K.; Bando, T.; Sugiyama, H.; Harada, Y.
    • Journal Title

      Biomater. Sci.

      Volume: 2 Issue: 3 Pages: 297-307

    • DOI

      10.1039/c3bm60202h

    • NAID

      120005587835

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Optically detected magnetic resonance of nanodiamonds in vivo; Implementation of selective imaging and fast sampling2014

    • Author(s)
      Yoshinari, Y., Mori, S., Igarashi, R., Sugi, T., Yokota, H., Ikeda, K., Sumiya, H., Mori, I., Tochio, H., Harada, Y., Shirakawa, M.
    • Journal Title

      Journal of Nanoscience and Nanotechnology

      Volume: -

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Single-molecule imaging of the oligomer formation of the non-hexameric Escherichia coli UvrD helicase2013

    • Author(s)
      Yokota, H., Chujo, Y., and Harada, Y.
    • Journal Title

      Biophysical Journal

      Volume: 104 Issue: 4 Pages: 924-933

    • DOI

      10.1016/j.bpj.2013.01.014

    • NAID

      120005245095

    • Related Report
      2012 Research-status Report
    • Peer Reviewed
  • [Journal Article] Binding of hairpin pyrrole and imidazole polyamides to DNA : relationship between torsion angle and association rate constants2012

    • Author(s)
      Han YW, Matsumoto T, Yokota H, Kashiwazaki G, Morinaga H, Hashiya K, Bando T, Harada Y, Sugiyama H.
    • Journal Title

      Nucleic Acids Res

      Volume: 40 Issue: 22 Pages: 11510-11517

    • DOI

      10.1093/nar/gks897

    • Related Report
      2012 Research-status Report
    • Peer Reviewed
  • [Journal Article] Real-time background-free selective imaging of fluorescent nanodiamond in vivn2012

    • Author(s)
      Ryuji Igarashi, Yohsake Yoshinari, Riroaki Yokoia, Takuma Sugi, Fuminori Sugihara, Kazuhiro Ikeda, Hiroshi Sumiya, Shigenori Tsuji, Ikme Mori, Hidehito Tochio, Yoshie Rarada, Masahiro Shirakawa.
    • Journal Title

      Nano Letters

      Volume: 12 Issue: 11 Pages: 5726-5732

    • DOI

      10.1021/nl302979d

    • Related Report
      2012 Research-status Report
    • Peer Reviewed
  • [Presentation] 哺乳類ヌクレオチド除去修復タンパク質XPCのDNA結合モードの1分子イメージング2014

    • Author(s)
      横田浩章, 戸根大輔, 大西優貴, 韓龍雲, 原田慶恵, 菅澤薫
    • Organizer
      第37回日本分子生物学会
    • Place of Presentation
      パシフィコ横浜(横浜市西区)
    • Year and Date
      2014-11-25 – 2014-11-27
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] 哺乳類ヌクレオチド除去修復タンパク質XPCのDNA結合モードの1分子イメージング2014

    • Author(s)
      横田浩章, 戸根大輔, 大西優貴, 韓龍雲, 原田慶恵, 菅澤薫
    • Organizer
      第52回日本生物物理学会年会
    • Place of Presentation
      札幌コンベンションセンター(札幌市白石区)
    • Year and Date
      2014-09-25 – 2014-09-27
    • Related Report
      2014 Annual Research Report
  • [Presentation] Single-molecule direct visualization of the mammalian nucleotide excision repair protein XPC2013

    • Author(s)
      Yokota, H., Tone, D., Han, Y.-W., Sugasawa, K. Harada, Y.
    • Organizer
      第51回日本生物物理学会年会
    • Place of Presentation
      国立京都国際会館
    • Related Report
      2013 Research-status Report
  • [Presentation] 哺乳類ヌクレオチド除去修復タンパク質XPCの1分子イメージング:DNA上での1次元自由拡散運動の観察2013

    • Author(s)
      横田浩章, 戸根大輔, 韓龍雲, 原田慶恵, 菅澤薫
    • Organizer
      第36回日本分子生物学会年会
    • Place of Presentation
      神戸ポートアイランド
    • Related Report
      2013 Research-status Report
  • [Presentation] タンパク質の1 分子動態計測 ~1 分子直視と1 分子顕微鏡開発~

    • Author(s)
      横田浩章
    • Organizer
      浜松ホトニクスシステム事業部 セミナー
    • Place of Presentation
      浜松ホトニクスシステム事業部
    • Related Report
      2013 Research-status Report
    • Invited
  • [Presentation] タンパク質の1 分子動態計測 ~1 分子直視と1 分子顕微鏡開発

    • Author(s)
      横田浩章
    • Organizer
      浜松ホトニクス中央研究所 講演会
    • Place of Presentation
      浜松ホトニクス中央研究所
    • Related Report
      2013 Research-status Report
    • Invited
  • [Presentation] 大腸菌非六量体型DNA ヘリカーゼUvrD は多量体でDNA を巻き戻す

    • Author(s)
      横田浩章, 原田慶恵
    • Organizer
      日本生物物理学会第50回年会
    • Place of Presentation
      名古屋大学
    • Related Report
      2012 Research-status Report
  • [Presentation] 大腸菌非六量体型DNA ヘリカーゼUvrD は多量体でDNA を巻き戻す

    • Author(s)
      横田浩章, 原田慶恵
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡国際会議場・マリンメッセ福岡
    • Related Report
      2012 Research-status Report
  • [Presentation] 大腸菌非六量体型DNA ヘリカーゼUvrD は多量体形成の1分子イメージング

    • Author(s)
      横田浩章, 原田慶恵
    • Organizer
      2013年生体運動研究合同班会議
    • Place of Presentation
      広島大学
    • Related Report
      2012 Research-status Report
  • [Presentation] タンパク質1分子の動態計測―1分子直視と1分子顕微鏡開発―

    • Author(s)
      横田浩章
    • Organizer
      名古屋大学理学研究科生命理学専攻セミナー
    • Place of Presentation
      名古屋大学
    • Related Report
      2012 Research-status Report
    • Invited
  • [Presentation] タンパク質1分子の動態計測―1分子直視と1分子顕微鏡開発―

    • Author(s)
      横田浩章
    • Organizer
      北海道大学理学研究院化学部門生物有機化学研究室セミナ
    • Place of Presentation
      北海道大学
    • Related Report
      2012 Research-status Report
    • Invited
  • [Presentation] Single-molecule imaging of ATPase reactions catalyzed by a DNA helicase

    • Author(s)
      Yokota, H.
    • Organizer
      Symposium on Hydration and ATP Energy
    • Place of Presentation
      ホテル岩沼屋(仙台市)
    • Related Report
      2012 Research-status Report
    • Invited
  • [Remarks] 光産業創成大学院大学光産業創成研究科 光バイオ分野

    • URL

      http://www.gpi.ac.jp/research/teacher/professor-18.html

    • Related Report
      2014 Annual Research Report

URL: 

Published: 2013-05-31   Modified: 2019-07-29  

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