Scaffold-independent analysis of RNA-Protein interactions:: The nova-1 KH3-RNA complex
Scaffold-independent analysis of RNA-Protein interactions:: The nova-1 KH3-RNA complex
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DOI：
10.1021/ja072365q
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发表时间：
2007-08-22
影响因子：
15
通讯作者：
Ramos, Andres
中科院分区：
文献类型：
--
作者：
Beuth, Barbara;Garcia-Mayoral, Maria Flor;Ramos, Andres
我们描述了一种分析RNA结合结构域序列特异性的方法。该方法，我们命名为支架独立分析，报告了RNA靶内每个核苷酸位置的特异性，与周围的结构和序列背景解偶联。我们希望这些信息能够提高我们对ssRNA结合结构域中蛋白质-RNA界面的理解（例如，KH或RRM结构域），并可用于设计新的蛋白质-RNA识别表面。我们使用Nova-1蛋白的第三个KH结构域的NMR结合试验为该方法提供了原理证明，并提供了关于该结构域对其RNA靶点的特异性的新信息。
We describe a method to analyze the sequence specificity of an RNA-binding domain. The method, which we have named scaffold-independent analysis, reports on the specificity for each nucleotide position within an RNA target, uncoupled from the surrounding structural and sequence context. We expect this information to improve our understanding of protein-RNA interfaces in ssRNA binding domains (e.g., KH or RRM domains) and to be useful to the design of novel protein-RNA recognition surfaces. Our NMR binding assays using the third KH domain of the Nova-1 protein provide a proof-of-principle for the method and novel information on the specificity of this domain for its RNA targets.