The identification of novel RNA structural motifs using COMPADRES: an automated approach to structural discovery
The identification of novel RNA structural motifs using COMPADRES: an automated approach to structural discovery
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DOI：
10.1093/nar/gkh1002
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发表时间：
2004-01-01
影响因子：
14.9
通讯作者：
Pyle, AM
中科院分区：
文献类型：
--
作者：
Wadley, LM;Pyle, AM
重复出现的RNA结构基序是三级相互作用的重要位点，因此是RNA大分子结构的组成部分。虽然许多RNA基序已经被分类和表征，但新的基序的鉴定是非常有趣的。在这项研究中，我们发现了四个新的构象重复基序：pi-turn， Omega-turn， α -loop和C2'-endo介导的翻转腺苷基序。它们不仅具有复杂而有趣的结构，而且还参与具有高度生物学意义的接触。在RNA领域的第一次，新的基序被完全自动化的算法发现。COMPADRES算法利用RNA主干的简化表示，在识别独特的结构关系方面非常成功。该研究还表明，重复出现的RNA亚结构不一定伴随着一致的一级或二级结构。
Recurring RNA structural motifs are important sites of tertiary interaction and as such, are integral to RNA macromolecular structure. Although numerous RNA motifs have been classified and characterized, the identification of new motifs is of great interest. In this study, we discovered four new conformationally recurring motifs: the pi-turn, the Omega-turn, the alpha-loop and the C2'-endo mediated flipped adenosine motif. Not only do they have complex and interesting structures, but they participate in contacts of high biological significance. In a first for the RNA field, new motifs were discovered by a fully automated algorithm. This algorithm, COMPADRES, utilized a reduced representation of the RNA backbone and was highly successful at discerning unique structural relationships. This study also shows that recurring RNA substructures are not necessarily accompanied by consistent primary or secondary structure.