Comprehensive prediction of RNA-protein interactinos
| Project/Area Number |
25240044
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| Research Category |
Grant-in-Aid for Scientific Research (A)
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| Allocation Type | Single-year Grants |
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| Section | 一般 |
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| Research Field |
Life / Health / Medical informatics
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| Research Institution | The University of Tokyo |
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Principal Investigator |
Asai Kiyoshi 東京大学, 大学院新領域創成科学研究科, 教授 (30356357)
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| Co-Investigator(Kenkyū-buntansha) |
浜田 道昭 早稲田大学, 理工学術院, 准教授 (00596538)
亀田 倫史 国立研究開発法人産業技術総合研究所, 創薬基盤研究部門, 主任研究員 (40415774)
石黒 亮 法政大学, 付置研究所, 研究員 (70373264)
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| Co-Investigator(Renkei-kenkyūsha) |
YURA Kei お茶の水女子大学, 人間文化創成科学研究科, 教授 (50252226)
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| Project Period (FY) |
2013-04-01 – 2016-03-31
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| Project Status |
Completed (Fiscal Year 2016)
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| Budget Amount *help |
¥47,710,000 (Direct Cost: ¥36,700,000、Indirect Cost: ¥11,010,000)
Fiscal Year 2015: ¥14,300,000 (Direct Cost: ¥11,000,000、Indirect Cost: ¥3,300,000)
Fiscal Year 2014: ¥15,210,000 (Direct Cost: ¥11,700,000、Indirect Cost: ¥3,510,000)
Fiscal Year 2013: ¥18,200,000 (Direct Cost: ¥14,000,000、Indirect Cost: ¥4,200,000)
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| Keywords | RNA２次構造 / RNA-タンパク質相互作用 / ドッキング計算 / RNAタンパク質相互作用 / RNA・タンパク質相互作用 / RNA立体構造 / RNA2次構造 |
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| Outline of Final Research Achievements |
The aim of the research was to predict the RNA-protein interactions for non-coding RNAs and function-known proteins. Our analysis of RNA-protein complex in PDB showed that the nucleotides that do not form base-pairs in RNA 2D structures but form hydrogen bond with amino acids have lower base-pairing probabilities than the nucleotides that form neither base-pairs or hydrogen bonds with amino acids. We developed a new method to understand the landscape of the distribution of RNA 2D structures, by efficiently calculating the probabilities of all the structures with specific Hamming distances from the canonical structures. In order to predict the joint structure of RNA-protein complex, we performed rigid body docking simulations. After revising the force field for RNAs, our docking simulations showed better accuracy than previous methods, and we reported that in a peer reviewed journal.
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Report
(4 results)
Research Products
(32 results)
