Predicting enzyme functions based on complementarily in molecular interactions by using radial distribution functions with a self-organizing maps

• Project/Area Number: 20700263
• Research Category: Grant-in-Aid for Young Scientists (B)
• Allocation Type: Single-year Grants
• Research Field: Bioinformatics/Life informatics
• Research Institution: Hokkaido University
• Principal Investigator: UENO Keisuke Hokkaido University, 大学院・情報科学研究科, 博士研究員 (90435983)
• Project Period (FY): 2008 – 2010
• Project Status: Completed (Fiscal Year 2010)
• Budget Amount: ¥2,340,000 (Direct Cost: ¥1,800,000、Indirect Cost: ¥540,000); Fiscal Year 2010: ¥650,000 (Direct Cost: ¥500,000、Indirect Cost: ¥150,000); Fiscal Year 2009: ¥780,000 (Direct Cost: ¥600,000、Indirect Cost: ¥180,000); Fiscal Year 2008: ¥910,000 (Direct Cost: ¥700,000、Indirect Cost: ¥210,000)
• Keywords: 酵素機能予測 / 動径分布関数 / 自己組織化写像 / 分子間相互作用

Research Abstract

We developed a method to predict enzyme functions by using radial distribution functions of active sites with a self-organizing map. The method outperformed the structural and sequence alignments with their low similarities.

Research Products

• [Presentation] Enzyme function classified with a catalytic-site similarity (2009)
  • Author(s): 上野惠介
  • Organizer: CBI学会2009年大会(CBI-KSBSB JOINT CONFERENCE)
  • Place of Presentation: 韓国(海雲台グランドホテル)
  • Year and Date: 2009-11-05
• [Presentation] Enzyme function classified with a catalytic-site similarity (2009)
  • Author(s): 上野恵介
  • Organizer: CBI学会2009年大会(CBI-KSBSB JOINT CONFERENCE)
  • Place of Presentation: 海雲台グランドホテル, 釜山, 韓国
  • Year and Date: 2009-11-05
• [Presentation] Physicochemical Property of Enzyme-Ligand Interface for Molecular Interaction (2008)
  • Author(s): 上野惠介
  • Organizer: 2008年日本バイオインフオマテイクス学会年会
  • Place of Presentation: 大阪(千里ライフサイエンスセンタービル)
  • Year and Date: 2008-12-16
• [Presentation] Physicochemical Property of Enzyme-Ligand Interface for Molecular Interaction (2008)
  • Author(s): 上野恵介
  • Organizer: 2008年日本バイオインフォマティクス学会年会
  • Place of Presentation: 千里ライフサイエンスセンタービル、大阪
  • Year and Date: 2008-12-16
• [Presentation] Landscaping Enzymatic Reactions of Oxidoreductases by a Self-Organizing Neural Network (2008)
  • Author(s): 上野惠介
  • Organizer: 第17回国際タンパク質化学構造解析会議
  • Place of Presentation: 札幌(北海道大学学術交流会館)
  • Year and Date: 2008-08-28
• [Presentation] Landscaping Enzymatic Reactions of Oxidoreductases by a Self-Organizing Neural Network (2008)
  • Author(s): 上野恵介
  • Organizer: 第17回国際タンパク質化学構造解析会議
  • Place of Presentation: 北海道大学学術交流会館、札幌
  • Year and Date: 2008-08-28