Development of ion-channel composed of nucleic acids

• Project/Area Number: 23657072
• Research Category: Grant-in-Aid for Challenging Exploratory Research
• Allocation Type: Multi-year Fund
• Research Field: Structural biochemistry
• Research Institution: Kyoto University
• Principal Investigator: KATAHIRA Masato 京都大学, エネルギー理工学研究所, 教授 (70211844)
• Project Period (FY): 2011 – 2012
• Project Status: Completed (Fiscal Year 2012)
• Budget Amount: ¥3,900,000 (Direct Cost: ¥3,000,000、Indirect Cost: ¥900,000); Fiscal Year 2012: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000); Fiscal Year 2011: ¥2,340,000 (Direct Cost: ¥1,800,000、Indirect Cost: ¥540,000)
• Keywords: 核酸 / イオンチャネル / アプタマー / 4重鎖 / プリオン / リボザイム / ４重鎖 / リポソーム / 生物物理 / コレステロール

Research Abstract

The structure of a DNA/RNA quadruplex resembles that of an ion-channel. We tested if the quadruplex functions as an ion-channel. The quadruplex was embedded into liposome and a flow of ions was examined using fluorescent indicators. The results suggested that the quadruplex could function as an ion-channel. We also succeeded to elucidate the structural basis of the quadruplex as an anti-prion agent. The quadruplex was also utilized to switch the activity of a ribozyme.

Research Products

• [Journal Article] Anti-prion activity of an RNA aptamer and its structural basis (2013)
  • Author(s): Mashima, T., Nishikawa, F., Kamatari Y. O., Fujiwara, H., Saimura, M., Nagata, T., Kodaki, T., Nishikawa, S., Kuwata, K., Katahira, M.
  • Journal Title: Nucleic Acids Research Volume: 41 Issue: 2 Pages: 1355-1362
  • DOI: 10.1093/nar/gks1132
  • Peer Reviewed
• [Journal Article] リボスイッチ及び抗プリオン活性を示す RNA アプタマーの動作メカニズム (2013)
  • Author(s): 片平正人
  • Journal Title: 実験医学、羊土社 Volume: Vol. 31 Pages: 68-74
  • URL: https://www.yodosha.co.jp/jikkenigaku/
• [Journal Article] Intelligent ribozyme that switches its activity in response to K^+ through quadruplex formation (2012)
  • Author(s): Nagata, T., Sakurai, Y., Hara, Y., Mashima, T., Kodaki, T., Katahira, M.
  • Journal Title: FEBS Journal Volume: (印刷中) Issue: 8 Pages: 1456-1463
  • DOI: 10.1111/j.1742-4658.2012.08538.x
  • Peer Reviewed
• [Journal Article] Structure of Musashi1 in a complex with target RNA : The role of aromatic stacking interactions (2012)
  • Author(s): Ohyama, T., Nagata, T., Tsuda, K., Kobayashi, N., Imai, T., Okano, H., Yamazaki, T. and Katahira, M
  • Journal Title: Nucleic Acids Res Volume: 10 Issue: 7 Pages: 3218-3231
  • DOI: 10.1093/nar/gkr1139
  • Peer Reviewed
• [Journal Article] Structure of Musashi1 in a complex with target RNA: The role of aromatic stacking interactions (2012)
  • Author(s): Ohyama et al.
  • Journal Title: Nucleic Acids Res. Volume: in press
  • Peer Reviewed
• [Journal Article] Structural aspects for the recognition of ATP by ribonucleopeptide receptorsStructural aspects for the recognition of ATP by ribonucleopeptide receptors (2011)
  • Author(s): Nakano et al.
  • Journal Title: J. Am. Chem. Soc. Volume: 133 Pages: 4567-4579
  • Peer Reviewed
• [Journal Article] Heat shock protein 70 inhibits HIV-1 Vif-mediated ubiquitination and degradation of APOBEC3G (2011)
  • Author(s): Sugiyama et al.
  • Journal Title: J. Biol. Chem. Volume: 286 Pages: 10051-10057
  • Peer Reviewed
• [Journal Article] Structural Aspects for the Recognition of ATP by Ribonucleopeptide Receptors (2010)
  • Author(s): T. Morii, et al
  • Journal Title: J. Am. Chem. Soc Volume: Vol.133 Issue: 12 Pages: 4567-4579
  • DOI: 10.1021/ja110725d
  • Peer Reviewed
• [Presentation] Creation of Novl Ribozyme whose Activity Switches on in Response to K+ via Quadruples Formation (2012)
  • Author(s): Y. Yamaoki, T. Mashima, Y. Sakurai, Y. Hara, T. Kodaki, T. Nagata, M. Katahira
  • Organizer: 第35回日本分子生物学会年会
  • Place of Presentation: 福岡国際会議場(福岡市)
  • Year and Date: 2012-12-12
• [Presentation] Development of intelligent ribozyme whose activity switches on in response to K+via quadruplex formation (2012)
  • Author(s): Y. Yamaoki, T. Mashima, Y. Sakurai, Y. Hara, T. Nagata, M. Katahira
  • Organizer: The 39th Internaional Symposium on Nucleic Acids Chemistry
  • Place of Presentation: 名古屋大学(名古屋市)
  • Year and Date: 2012-11-16
• [Presentation] The 39th Internaional Symposium on Nucleic Acids Chemistry, Strctural analysisi of RNA aptamer in complex with prion protein, and its anti-prion activity (2012)
  • Author(s): T. Mashima, F, Nishikawa, Y. Kamatari, H. Fujiwara, T. Nagata, T. Kodaki, S. Nishikawa, K. Kuwata. M. Katahira
  • Organizer: The 39th Internaional Symposium on Nucleic Acids Chemistry
  • Place of Presentation: 名古屋大学(名古屋市)
  • Year and Date: 2012-11-15
• [Presentation] Anti-prion activity and its structural basis of RNA aptamer, and sliding-direction-dependent deaminase activity of anti-HIV enzyme (2012)
  • Author(s): Mashima. T., Furukawa, A., Sugase, K., Fujiwara, H., Nishikawa, F., Morishita, R., Ryo, A., Kamatari, Y., Nagata, T., Nishkawa, S., Kuwata, K. and Katahira, M.
  • Organizer: XXV International Conference on Magnetic Resonance in Biological Systems
  • Place of Presentation: Lyon (France)
  • Year and Date: 2012-08-21
• [Presentation] カリウムイオン濃度を感知して活性がオンになるインテリジェントリボザイムの創製 (2012)
  • Author(s): 山置雄大,真嶋司,櫻井佑,原ゆかり,永田崇,片平正人
  • Organizer: 第14回日本 RNA 学会年会
  • Place of Presentation: 東北大学(仙台市)
  • Year and Date: 2012-07-19
• [Presentation] Sliding-direction-dependent activity of anti-HIV enzyme,and structural basis of anti-prion activity of RNA aptamer (2012)
  • Author(s): A. Furukawa, T. Mashima, K. Sugase, H. Fujiwara, T. Nagata, R. Morishita, A. Ryo, F. Nishikawa, S. Nishikawa, Y. Kamatari, K. Kuwata, M. Katahira
  • Organizer: Korea-Japan Bilateral NMR Symposium
  • Place of Presentation: 北海道大学(札幌市)
  • Year and Date: 2012-03-16
• [Presentation] Anti-prion activity and it strucural basis of RNAaptamer, and sliding-direction-dependent deaminase activity of anti-HIV enzyme (2012)
  • Author(s): Masato Katahira
  • Organizer: XXV international Conference on Magnetic Resonance in Biological Systems
  • Place of Presentation: Lyon, France
• [Presentation] カリウムイオン濃度を感知して活性がオンになるインテリジェントリボザイムの創製 (2012)
  • Author(s): 山置雄大
  • Organizer: 第14回日本RNA学会年会
  • Place of Presentation: 東北大学（仙台市）
• [Presentation] Development of intelligent ribozyme whose activity switches on in response to K＋ｖia quadruplex formation (2012)
  • Author(s): Yuudai Yamaoki
  • Organizer: The 39th Internaional Symposium on Nucleic Acids Chemistry
  • Place of Presentation: 名古屋大学(名古屋市）
• [Presentation] Strctural analysisi of RNA aptamer in complex with prion protein, and its anti-prion activity (2012)
  • Author(s): Tsukasa Mashima
  • Organizer: The 39th Internaional Symposium on Nucleic Acids Chemistry
  • Place of Presentation: 名古屋大学（名古屋市）
• [Presentation] Creation of Novl Ribozyme whose Activity Switches on in Response to K+ via Quadruples Formation (2012)
  • Author(s): Yuudai Yamaoki
  • Organizer: 第35回日本分子生物学会年会
  • Place of Presentation: 福岡国際会議場（福岡市）
• [Presentation] Sliding-direction-dependent activity of anti-HIV enzyme, and structural basis of anti-prion activity of RNA aptamer (2012)
  • Author(s): Furukawa et al.
  • Organizer: Korea-Japan Bilateral NMR Symposium(招待講演)
  • Place of Presentation: 北海道大学
• [Presentation] r(GGA)4 chimeric ribozyme switches its activity in responseto K+ via quadruplex formation (2011)
  • Author(s): T. Nagata, Y. Sakurai, Y. Hara, T. Mashima, M. Katahira
  • Organizer: The 38th International Symposium on Nucleic Acid Chemistry
  • Place of Presentation: 北海道大学(札幌市)
  • Year and Date: 2011-11-11
• [Presentation] Structural basis of the high affinity of the RNA aptamer against prion protein (2011)
  • Author(s): T. Mashima, H. Fujiwara, T. Koshida, M. Saimura, M. Imamura, T.Yokoyama, F. Nishikawa, S. Nisikawa, M. Katahira
  • Organizer: RNA2011 SIXTEEN ANNUAL MEETING OF THE RNA SOCIETY
  • Place of Presentation: 京都国際会議場(京都市)
  • Year and Date: 2011-06-15
• [Presentation] Structural basis of the high affinity of the RNA aptamer against prion protein (2011)
  • Author(s): Mashima et al.
  • Organizer: The 16th annual meeting of the RNA society
  • Place of Presentation: プリンスホテル（京都府）
• [Presentation] r(GGA)4 chimeric ribozyme switches its activity in response to K+ via quadruplex formation (2011)
  • Author(s): Nagata et al.
  • Organizer: The 38th International Symposium on Nucleic Acids Chemistry
  • Place of Presentation: 北海道大学
• [Presentation] Base-deamination rate dependent on the direction of sliding of an enzyme along DNA as revealed by numerical analysis of NMR data, and wood biomass studied by solution NMR (2011)
  • Author(s): Nishimura et al.
  • Organizer: The International Symposium on Nuclear Magnetic Resonance 2011
  • Place of Presentation: 大桟橋ホール（神奈川県）
• [Presentation] Real-time monitoring of the cytidine deamination along single-stranded DNA by an anti-HIV factor, APOBEC3G (2011)
  • Author(s): Furukawa et al.
  • Organizer: The International Symposium on Nuclear Magnetic Resonance 2011
  • Place of Presentation: 大桟橋ホール（神奈川県）
• [Book] Encyclopedia of Biophysics, "Introduction to Nucleic Acids NMR" (2013)
  • Author(s): Katahira, M. and Mashima, T.
  • Publisher: Springer.
• [Book] Encyclopedia of Biophysics, “Introduction to Nucleic Acids NMR” (2013)
  • Author(s): Masato Katahira
  • Total Pages: 10
  • Publisher: Springer
• [Book] 日本化学会編・CSJ カレントレビュー"核酸化学のニュートレンド-DNA ・RNA の新たな可能性を開く" (分担)、Vol. 6 "論文にみる最重要概念と革新実験データ " (2011)
  • Author(s): 片平正人
  • Publisher: 化学同人
• [Book] 日本化学会編・CSJカレントレビュー"核酸化学のニュートレンド－DNA・RNAの新たな可能性を開く" (2011)
  • Author(s): 片平正人
  • Total Pages: 5
  • Publisher: 化学同人
• [Remarks]
  • URL: http://www.iae.kyoto-u.ac.jp/bio/
• [Remarks] 片平研究室
  • URL: http://www.iae.kyoto-u.ac.jp/bio/