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DNA/RNA hybrid mesoscopic model shows strong stability dependence with deoxypyrimidine content and stacking interactions similar to RNA/RNA
Chemical Physics Letters ( IF 2.8 ) Pub Date : 2018-11-08 , DOI: 10.1016/j.cplett.2018.11.015
Erik de Oliveira Martins , Vivianne Basílio Barbosa , Gerald Weber

Despite the importance of DNA/RNA hybrids, a mesoscopic approach still missing. We developed a mesoscopic model for DNA/RNA hybrids and obtained the complete parametrization from published melting temperatures. The new parameters show very clearly the reduced strength of the hydrogen bond of dArU base pairs, resulting in a weakened stabilization of the double helix and a strong stability dependence on deoxypyrimidine content. The stacking parameters show no correlation to B-DNA, however we obtain a moderate correlation to A-RNA. We discuss some example sequences with variable deoxypyrimidine contents and for polipurine tracts (PPT).



中文翻译:

DNA / RNA混合介观模型显示出对脱氧嘧啶含量和与RNA / RNA相似的堆积相互作用的强烈稳定性依赖性

尽管DNA / RNA杂交的重要性,介观方法仍然缺失。我们开发了DNA / RNA杂合体的介观模型,并从公开的解链温度获得了完整的参数化。新参数非常清楚地表明,dArU碱基对的氢键强度降低,导致双螺旋的稳定性减弱,并且对脱氧嘧啶含量的依赖性强。堆积参数显示与B-DNA没有相关性,但是我们获得了与A-RNA的中等相关性。我们讨论了一些示例性的序列,这些序列具有可变的脱氧嘧啶含量,并且用于嘌呤嘌呤区(PPT)。

更新日期:2018-11-09
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