Secondary structure prediction for aligned RNA sequences

被引：459
|
作者：
Hofacker, IL
Fekete, M
Stadler, PF
机构：
[1] Univ Vienna, Inst Theoret Chem, A-1090 Vienna, Austria
[2] Santa Fe Inst, Santa Fe, NM 87501 USA
来源：
JOURNAL OF MOLECULAR BIOLOGY | 2002年 / 319卷 / 05期
基金：
奥地利科学基金会;
关键词：
RNA secondary structure prediction; conserved substructures; compensatory mutations;
D O I：
10.1016/S0022-2836(02)00308-X
中图分类号：
Q5 [生物化学]; Q7 [分子生物学];
学科分类号：
071010 ; 081704 ;
摘要：
Most functional RNA molecules have characteristic secondary structures that are highly conserved in evolution. Here we present a method for computing the consensus structure of a set aligned RNA sequences taking into account both thermodynamic stability and sequence covariation. Comparison with phylogenetic structures of rRNAs shows that a reliability of prediction of more than 80% is achieved for only five related sequences. As an application we show that the Early Noduline mRNA contains significant secondary structure that is supported by sequence covariation. (C) 2002 Elsevier Science Ltd. All rights reserved.
引用
收藏
页码：1059 / 1066
页数：8
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