Prospects for Tertiary Structure Prediction of RNA Based on Secondary Structure Information

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• 作者：Satoshi Yamasaki ; Shugo Nakamura ; Kazuhiko Fukui
• 刊名：Journal of Chemical Information and Modeling
• 出版年：2012
• 出版时间：February 27, 2012
• 年：2012
• 卷：52
• 期：2
• 页码：557-567
• 全文大小：576K
• 年卷期：v.52,no.2(February 27, 2012)
• ISSN：1549-960X

文摘

We developed a method, called RNA Assembler using Secondary Structure Information Effectively (RASSIE), for predicting RNA tertiary structures using known secondary structure information. We attempted a fragment assembly-based method that uses a secondary structure-based fragment library. For several typical target structures such as stem-loops, bulge-loops, and 2-way junctions, our method provided numerous good quality candidate structures in less computational time than previously proposed methods. By using a high-resolution potential energy function, we were able to select good predicted structures from candidate structures. This method of efficient conformational search and detailed structure evaluation using high-resolution potential is potentially useful for the tertiary structure prediction of RNA.