Development of database toward an estimation of secondary metabolic pathways

2014 Fiscal Year Final Research Report

• Project Area: Biosynthetic machinery: Deciphering and regulating the system for bioactive metabolite diversification
• Project/Area Number: 22108009
• Research Category: Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
• Allocation Type: Single-year Grants
• Review Section: Science and Engineering
• Research Institution: Nara Institute of Science and Technology
• Principal Investigator: KANAYA Shigehiko 奈良先端科学技術大学院大学, 情報科学研究科, 教授 (90224584)
• Project Period (FY): 2010-04-01 – 2015-03-31
• Keywords: バイオインフォマティクス / ケモインフォマティクス / データベース / 二次代謝物 / 生合成情報 / 生物代謝 / ゲノム / メタボローム

Outline of Final Research Achievements

In order to systematize between relationships between peptide sequences and enzyme functions including reaction mechanism, we constructed enzyme database (KNApSAcK Motorcycle DB, http://kanaya.naist.jp/motorcycle/top2.html) involving secondary metabolites in the scientific literature. The DB comprises 2,421 secondary metabolic reactions. Enzyme reactions can be retrieved using keywords of the enzymes, species, genes, metabolites and peptide sequences obtained from a BLASTP search. In the metabolite search using its keywords, we obtain information on enzyme name, reaction equation, compound class and subclass of metabolic reactions and reaction mechanisms. In the BLASTP search, we can comprehensively predict reaction equations for a targeted peptide sequence using information on the class and subclass of metabolic pathways. Thus, the Motorcycle DB makes it possible to predict enzyme reactions based on the class and subclass of metabolic reactions evidenced by experiments.

Free Research Field

バイオインフォマティクス