Development of a new De Novo protein structure prediction method based on a different approach of the fragment assembly method
| Project/Area Number |
23770174
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| Research Category |
Grant-in-Aid for Young Scientists (B)
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| Allocation Type | Multi-year Fund |
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| Research Field |
Biophysics
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| Research Institution | Nagoya University |
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Principal Investigator |
GEORGE Chikenji 名古屋大学, 工学(系)研究科(研究院), 助教 (10420366)
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| Project Period (FY) |
2011-04-28 – 2015-03-31
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| Project Status |
Completed (Fiscal Year 2014)
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| Budget Amount *help |
¥4,680,000 (Direct Cost: ¥3,600,000、Indirect Cost: ¥1,080,000)
Fiscal Year 2013: ¥910,000 (Direct Cost: ¥700,000、Indirect Cost: ¥210,000)
Fiscal Year 2012: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Fiscal Year 2011: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
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| Keywords | タンパク質 / 立体構造予測 / フラグメントアセンブリ法 / 構造アラインメント / non-sequential / 立体構造 / 構造比較 / 二次構造パッキング / ループクロス / 新規フォールド構造 / 非局所的相互作用 |
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| Outline of Final Research Achievements |
Protein structure prediction is one of the most important problems in biophysics. Although the fragment assembly method has been known as the most successful method, it has clear limitation. In this research project, we developed a new De Novo protein structure prediction method based on a different approach of the fragment assembly method. In this method, new fold structures are generated by permutation of secondary structures, and model qualities are assessed by physic-chemical energy function. We also developed several algorithms of structural bioinformatics, such as a non-sequential structure alignment algorithm and a program for detecting loop crossing. We performed protein structure prediction benchmark tests using the new method and found that our method outperformed the fragment assembly method for some targets.
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Report
(5 results)
Research Products
(38 results)
