ARTS: alignment of RNA tertiary structures
ARTS: alignment of RNA tertiary structures
复制标题
DOI：
10.1093/bioinformatics/bti1108
复制
发表时间：
2005-09-01
期刊：
影响因子：
5.8
通讯作者：
Wolfson, H
中科院分区：
文献类型：
--
作者：
Dror, O;Nussinov, R;Wolfson, H
动机：最近发现，越来越多的非编码RNA在许多细胞过程中发挥重要作用。与蛋白质类似，了解这些活性RNA的功能需要分析其三级结构的方法。然而，与广泛的基于结构的方法可用于蛋白质相比，仍然缺乏用于研究RNA structure.Results的方法：我们提出了一种新的计算方法命名为ARTS（对齐RNA三级结构）。该方法比较两种核酸结构（RNA或DNA）并检测先验未知的共同子结构。这些亚结构可以是包含数百甚至数千个核苷酸的大型全局折叠，也可以是具有至少两个连续碱基对的小型局部三级基序。据我们所知，这是这种类型的第一种方法。该方法是高效的，并用于进行所有对所有的RNA结构的比较，目前在蛋白质数据库。可用性：该程序，一个网络服务器和补充信息可在http://bioinfo3d.cs.tau.ac.il/ARTS。
Motivation: A fast growing number of non-coding RNAs have recently been discovered to play essential roles in many cellular processes. Similar to proteins, understanding the functions of these active RNAs requires methods for analyzing their tertiary structures. However, in contrast to the wide range of structure-based approaches available for proteins, there is still a lack of methods for studying RNA structures.Results: We present a new computational method named ARTS (alignment of RNA tertiary structures). The method compares two nucleic acid structures (RNAs or DNAs) and detects a-priori unknown common substructures. These substructures can be either large global folds containing hundreds and even thousands of nucleotides or small local tertiary motifs with at least two successive base pairs. To the best of our knowledge, this is the first method of this type. The method is highly-efficient and was used to conduct an all-against-all comparison of all the RNA structures currently available in the Protein Data Bank.Availability: The program, a web-server and supplementary information are available on http://bioinfo3d.cs.tau.ac.il/ARTS.