Structural analysis of the interaction between the Ku protein and DNA

• Project/Area Number: 21510063
• Research Category: Grant-in-Aid for Scientific Research (C)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: Risk sciences of radiation/Chemicals
• Research Institution: National Institute of Infectious Diseases
• Principal Investigator: FUJIMOTO Hirofumi 国立感染症研究所, 放射能管理室, 主任研究官 (60373396)
• Co-Investigator(Kenkyū-buntansha): KOIKE Manabu 独立行政法人放射線医学総合研究所, 放射線障害研究グループ, 主任研究員 (70280740)
• Co-Investigator(Renkei-kenkyūsha): SAKUDOH Takashi 国立感染症研究所, 放射能管理室, 主任研究官 (70455393) ; TSUCHIDA Kozo 国立感染症研究所, 放射能管理室, 室長 (40231435)
• Project Period (FY): 2009 – 2011
• Project Status: Completed (Fiscal Year 2011)
• Budget Amount: ¥4,550,000 (Direct Cost: ¥3,500,000、Indirect Cost: ¥1,050,000); Fiscal Year 2011: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000); Fiscal Year 2010: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000); Fiscal Year 2009: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
• Keywords: DNA二本鎖切断 / Ku / DNA損傷認識 / 分子動力学シミュレーション / Kuタンパク質

Research Abstract

The binding mechanism of the repair enzyme, Ku, to the end of double strand DNA was examined by both computational and experimental techniques. Molecular models of Ku-DNA complex were constructed to estimate the binding energy between Ku and DNA, and amino acids that would interact with both DNA and Ku itself were identified. The new Ku-deficient cell line was established to investigate a detailed function of the predicted region.

Research Products

• [Journal Article] A possible overestimation of the effect of acetylation on lysine residues in KQ mutant analysis (2012)
  • Author(s): Hirofumi Fujimoto, Mariko Higuchi, Manabu Koike, Hirotaka Ode, Miroslav Pinak, Juraj Kotulic Bunta, Toshiyuki Nemoto, Takashi Sakudoh, Naoko Honda, Hideaki Maekawa, Kimiaki Saito, Kozo Tsuchida
  • Journal Title: J. Comput. Chem Volume: 33 Issue: 3 Pages: 239-246
  • DOI: 10.1002/jcc.21956
  • Peer Reviewed
• [Journal Article] Establishment of Ku70-Deficient Lung Epithelial Cell Lines and Their Hypersensitivity to Low-Dose X-Irradiation (2011)
  • Author(s): Manabu KOIKE, Yasutomo YUTOKU, Aki KOIKE
  • Journal Title: Journal of Veterinary Medical Science Volume: 73 Issue: 5 Pages: 549-554
  • DOI: 10.1292/jvms.10-0454
  • NAID: 130000444626
  • ISSN: 0916-7250, 1347-7439
  • Peer Reviewed
• [Journal Article] Accumulation of Ku70 at DNA double-strand breaks in living epithelial cells (2011)
  • Author(s): Manabu Koike, Yasutomo Yutoku, Aki Koike
  • Journal Title: Exp. Cell. Res Volume: 317 Issue: 17 Pages: 2429-2437
  • DOI: 10.1016/j.yexcr.2011.07.018
  • Peer Reviewed
• [Journal Article] Establishment of Ku70-Deficient Lung Epithelial Cell Lines and Their Hypersensitivity to Low-Dose X-Irradiation.
  • Author(s): Manabu KOIKE, Yasutomo YUTOKU, Aki KOIKE
  • Journal Title: Journal of Veterinary Medical Science 14 Volume: in press
  • NAID: 130000444626
  • Peer Reviewed
• [Presentation] がん細胞への放射線作用とDNA修復機構 (2011)
  • Author(s): 小池学
  • Organizer: 昭和大学腫瘍分子研セミナー
  • Place of Presentation: 東京
  • Year and Date: 2011-10-17
• [Presentation] がん細胞への放射線作用とDNA修復機構 (2011)
  • Author(s): 小池学
  • Organizer: 昭和大学腫瘍分子研セミナー
  • Place of Presentation: 東京,品川
  • Year and Date: 2011-10-17
• [Presentation] Structural analysis of the interaction between the Ku protein and DNA (2011)
  • Author(s): Fujimoto H
  • Organizer: The 14th International Congress of Radiation Research(ICRR2011)
  • Place of Presentation: Warsaw, Czech republic
  • Year and Date: 2011-08-31
• [Presentation] Structural analysis of the interaction between the Ku protein and DNA (2011)
  • Author(s): Fujimoto H, et al
  • Organizer: The 14th International Congress of Radiation Research (ICRR2011)
  • Place of Presentation: Warsaw, Czech republic(招待講演)
  • Year and Date: 2011-08-31
• [Presentation] 計算化学的手法を用いたKuタンパク質とDNAの相互作用部位の構造解析 (2010)
  • Author(s): 藤本浩文
  • Organizer: 第33回日本分子生物学会年会・第83回日本生化学会大会合同大会(BMB2010)
  • Place of Presentation: 兵庫
  • Year and Date: 2010-12-07
• [Presentation] 計算化学的手法を用いたKuタンパク質とDNAの相互作用部位の構造解析 (2010)
  • Author(s): 藤本浩文, 樋口真理子, 小池学, Miroslav Pinak, Juraj Kotulic Bunta, 根本俊行, 前川秀彰, 作道隆, 高田直子, 土田耕三
  • Organizer: BMB2010事務局(第33回日本分子生物学会年会・第83回日本生化学会大会合同大会)
  • Place of Presentation: 神戸ホトアイランド(兵庫県)
  • Year and Date: 2010-12-07
• [Presentation] Structural analysis of the interaction between the Ku protein and DNA (2009)
  • Author(s): 藤本浩文
  • Organizer: 第32回日本分子生物学会年会
  • Place of Presentation: 神奈川
  • Year and Date: 2009-12-11
• [Presentation] Structural analysis of the interaction between the Ku protein and DNA (2009)
  • Author(s): 藤本浩文
  • Organizer: 第32回日本分子生物学会年会
  • Place of Presentation: パシフィコ横浜(神奈川県)
  • Year and Date: 2009-12-11
• [Presentation] 近紫外線レーザーマイクロ照射によるDNA修復酵素の挙動解析 (2009)
  • Author(s): 小池学
  • Organizer: 第4回高崎量子応用研究シンポジウム
  • Place of Presentation: 群馬
  • Year and Date: 2009-10-09
• [Presentation] 近紫外線レーザーマイクロ照射によるDNA修復酵素の挙動解析 (2009)
  • Author(s): 小池学
  • Organizer: 第4回 高崎量子応用研究シンポジウム
  • Place of Presentation: 高崎シティギャラリー・コアホール(群馬県)
  • Year and Date: 2009-10-09
• [Presentation] Molecular mechanisms of DNA double-strand break recognition process by NHEJ factor Ku in mammalian living cells (2009)
  • Author(s): 小池学
  • Organizer: 第68回日本癌学会学術総会
  • Place of Presentation: 神奈川
  • Year and Date: 2009-10-01
• [Presentation] Molecular mechanisms of DNA double-strand break recognition process by NHEJ factor Ku in mammalian living cells (2009)
  • Author(s): 小池学
  • Organizer: 第68回日本癌学会学術総会
  • Place of Presentation: パシフィコ横浜(神奈川県)
  • Year and Date: 2009-10-01