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在高效移码刺激结构中张力下的复杂动力学。

Complex dynamics under tension in a high-efficiency frameshift stimulatory structure.

机构信息

Department of Physics, University of Alberta, Edmonton, AB, Canada T6G2E1.

Department of Physics, University of Alberta, Edmonton, AB, Canada T6G2E1

出版信息

Proc Natl Acad Sci U S A. 2019 Sep 24;116(39):19500-19505. doi: 10.1073/pnas.1905258116. Epub 2019 Aug 13.

Abstract

Specific structures in mRNA can stimulate programmed ribosomal frameshifting (PRF). PRF efficiency can vary enormously between different stimulatory structures, but the features that lead to efficient PRF stimulation remain uncertain. To address this question, we studied the structural dynamics of the frameshift signal from West Nile virus (WNV), which stimulates -1 PRF at very high levels and has been proposed to form several different structures, including mutually incompatible pseudoknots and a double hairpin. Using optical tweezers to apply tension to single mRNA molecules, mimicking the tension applied by the ribosome during PRF, we found that the WNV frameshift signal formed an unusually large number of different metastable structures, including all of those previously proposed. From force-extension curve measurements, we mapped 2 mutually exclusive pathways for the folding, each encompassing multiple intermediates. We identified the intermediates in each pathway from length changes and the effects of antisense oligomers blocking formation of specific contacts. Intriguingly, the number of transitions between the different conformers of the WNV frameshift signal was maximal in the range of forces applied by the ribosome during -1 PRF. Furthermore, the occupancy of the pseudoknotted conformations was far too low for static pseudoknots to account for the high levels of -1 PRF. These results support the hypothesis that conformational heterogeneity plays a key role in frameshifting and suggest that transitions between different conformers under tension are linked to efficient PRF stimulation.

摘要

mRNA 中的特定结构可以刺激程序性核糖体移码(PRF)。不同的刺激结构之间的 PRF 效率差异很大,但导致高效 PRF 刺激的特征仍然不确定。为了解决这个问题,我们研究了西尼罗河病毒(WNV)的移码信号的结构动力学,该信号以非常高的水平刺激-1 PRF,并且已经提出形成几种不同的结构,包括相互不相容的假结和双发夹。使用光镊对单个 mRNA 分子施加张力,模拟 PRF 过程中核糖体施加的张力,我们发现 WNV 移码信号形成了异常数量的不同亚稳态结构,包括以前提出的所有结构。通过力-伸长曲线测量,我们绘制了 2 条相互排斥的折叠途径,每条途径都包含多个中间体。我们从长度变化和抗核酸寡核苷酸阻断特定接触形成的影响中确定了每个途径中的中间体。有趣的是,在核糖体在-1 PRF 过程中施加的力范围内,WNV 移码信号的不同构象之间的转变数量最多。此外,假结构象的占有率太低,静态假结构无法解释-1 PRF 的高水平。这些结果支持构象异质性在移码中起关键作用的假设,并表明张力下不同构象之间的转变与高效 PRF 刺激有关。

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