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Visualizing disordered single-stranded RNA: connecting sequence, structure and electrostatics
Journal of the American Chemical Society ( IF 14.4 ) Pub Date : 2019-12-05 , DOI: 10.1021/jacs.9b04461
Alex Plumridge 1 , Kurt Andresen 2 , Lois Pollack 1
Affiliation  

Disordered homopolymeric regions of single stranded RNA, such as U or A tracts, are found within functional RNAs where they play distinct roles in defining molecular structure and facilitating recognition by partners. Despite this prominence, details of conformational and biophysical properties of these regions have not yet been resolved. We apply a number of experimental techniques to investigate the conformations of these biologically important motifs, and provide quantitative measurements of their ion atmospheres. Single strands of RNA display pronounced sequence dependent conformations that relate to the unique ion atmospheres each attracts. Chains of rU bases are relatively unstructured under all conditions, while chains of rA bases display distinct ordering, through stacking or clustering motifs, depending on the composition of the surrounding solution. These dramatic structural differences are consistent with the measured disparity in ion composition and atmospheres around each homopolymer, revealing a complex interplay of base, ion and single-strand ordering. The unique structural and ionic signatures of homopolymer ssRNAs explains their role(s) in folding structured RNAs, and may explain their distinct recognition by protein partners.

中文翻译:

可视化无序单链 RNA:连接序列、结构和静电

在功能性 RNA 中发现了单链 RNA 的无序均聚区域,例如 U 或 A 束,它们在定义分子结构和促进合作伙伴识别方面发挥着不同的作用。尽管如此突出,这些区域的构象和生物物理特性的细节尚未得到解决。我们应用了许多实验技术来研究这些具有重要生物学意义的基序的构象,并提供对其离子气氛的定量测量。RNA 的单链显示出明显的序列依赖性构象,这些构象与每个吸引的独特离子气氛相关。rU 碱基链在所有条件下都相对非结构化,而 rA 碱基链通过堆叠或聚类基序显示出不同的排序,取决于周围溶液的组成。这些显着的结构差异与每个均聚物周围的离子组成和气氛的测量差异一致,揭示了碱基、离子和单链排序之间复杂的相互作用。均聚物 ssRNA 的独特结构和离子特征解释了它们在折叠结构化 RNA 中的作用,并且可以解释它们被蛋白质伙伴的独特识别。
更新日期:2019-12-05
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