DNA quadruplex folding formalism - A tutorial on quadruplex topologies
DNA quadruplex folding formalism - A tutorial on quadruplex topologies
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DOI：
10.1016/j.ymeth.2013.06.004
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发表时间：
2013-11-01
期刊：
影响因子：
4.8
通讯作者：
da Silva, Mateus Webba
中科院分区：
文献类型：
--
作者：
Karsisiotis, Andreas Ioannis;O'Kane, Christopher;da Silva, Mateus Webba
DNA的四链结构采用各种各样的拓扑，这取决于它们所处的环境。我们一直在发展一种基于碱基和它的糖之间的关系的四链折叠的形式--由糖苷键角度定义。通过将四链茎简化为基于糖苷键合角可采用的角度范围的两种有限状态的描述，可以描述环类型与四链茎的沟槽宽度的关系。在目前的形式下，这种形式主义允许预测一些单分子四链拓扑。它的规则虽然是为三个环的单分子四链而发展的，但对于理解多分子折叠以及三个以上环的单分子四链的结构特征的相互依赖关系是普遍有用的。在这里，我们描述了目前对定义四链折叠的相互依赖的结构特征的理解，并提供了使用和应用这种形式主义的教程。(C)2013 Elsevier Inc.保留所有权利。
Quadruplexes of DNA adopt a large variety of topologies that are dependent on their environment. We have been developing a formalism for quadruplex folding based on the relationship between base and its sugar - as defined by the glycosidic bond angle. By reducing the quadruplex stem to a description based on two finite states of the range of angles the glycosidic bond angle may adopt, the description of the relationships of type of loop and groove widths of a quadruplex stem are possible. In its current form this formalism has allowed for the prediction of some unimolecular quadruplex topologies. Its rules, whilst developed for unimolecular quadruplexes of three loops, are of general utility in understanding the interdependency of structural characteristics of multimolecular folds, as well as unimolecular quadruplexes of more than three loops. Here we describe current understanding of the interdependent structural features that define the quadruplex fold, and provide a tutorial for the use and application of this formalism. (C) 2013 Elsevier Inc. All rights reserved.