A NMR strategy to unambiguously distinguish nucleic acid hairpin and duplex conformations applied to a Xist RNA A-repeat.
A NMR strategy to unambiguously distinguish nucleic acid hairpin and duplex conformations applied to a Xist RNA A-repeat.
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DOI：
10.1093/nar/gkn776
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发表时间：
2008-12
影响因子：
14.9
通讯作者：
Sattler M
中科院分区：
文献类型：
--
作者：
Duszczyk MM;Zanier K;Sattler M
所有折叠成发夹结构的RNA序列都具有形成分子间双链体的内在潜力，因为它们具有高度的自身互补性。在高盐条件下和高RNA浓度下，更稳定的双链体构象是有利的，这对小RNA发夹构象的结构研究提出了挑战性的问题。我们开发并应用了一种新的方法来明确区分RNA发夹和双链体构象的Xist RNA A-重复序列的结构分析。使用定量HNN-COSY实验和优化的双同位素过滤NOESY实验的组合，我们可以定义26-mer A-重复RNA的构象。与先前对双发夹结构的二级结构预测相反，NMR数据显示仅形成第一预测发夹，而第二预测发夹通过与第二A重复形成双链体介导A重复的二聚化。这里采用的策略通常适用于识别和定量发夹和双链体构象的群体，并从分子间和分子内碱基配对模式定义RNA折叠拓扑结构。
All RNA sequences that fold into hairpins possess the intrinsic potential to form intermolecular duplexes because of their high self-complementarity. The thermodynamically more stable duplex conformation is favored under high salt conditions and at high RNA concentrations, posing a challenging problem for structural studies of small RNA hairpin conformations. We developed and applied a novel approach to unambiguously distinguish RNA hairpin and duplex conformations for the structural analysis of a Xist RNA A-repeat. Using a combination of a quantitative HNN-COSY experiment and an optimized double isotope-filtered NOESY experiment we could define the conformation of the 26-mer A-repeat RNA. In contrast to a previous secondary structure prediction of a double hairpin structure, the NMR data show that only the first predicted hairpin is formed, while the second predicted hairpin mediates dimerization of the A-repeat by duplex formation with a second A-repeat. The strategy employed here will be generally applicable to identify and quantify populations of hairpin and duplex conformations and to define RNA folding topology from inter- and intra-molecular base-pairing patterns.
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影响因子：
2.9
作者：
MARKY, LA;BRESLAUER, KJ
通讯作者：
BRESLAUER, KJ
DOI：
10.1016/0006-291x(80)90695-6
发表时间：
1980-01-01
影响因子：
3.1
作者：
KUMAR, A;ERNST, RR;WUTHRICH, K
通讯作者：
WUTHRICH, K
X 染色体失活对 Xist 的要求
影响因子：
64.8
作者：
Penny, GD;Kay, GF;Brockdorff, N
通讯作者：
Brockdorff, N
DOI：
10.1073/pnas.95.24.14147
发表时间：
1998-11-24
影响因子：
11.1
作者：
Pervushin, K;Ono, A;Wüthrich, K
通讯作者：
Wüthrich, K
影响因子：
2.7
作者：
DELAGLIO, F;GRZESIEK, S;BAX, A
通讯作者：
BAX, A