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纽蛋白的完整模型揭示了螺旋超束展开激活的机制。

Complete Model of Vinculin Suggests the Mechanism of Activation by Helical Super-Bundle Unfurling.

作者信息

Stec Dominik L, Stec Boguslaw

机构信息

University of California at San Diego, 9500 Gillman Dr., La Jolla, CA, 92093, USA.

Sanford Burnham Prebys Medical Discovery Institute, 10901 N. Torrey Pines Rd., La Jolla, CA, 92037, USA.

出版信息

Protein J. 2022 Feb;41(1):55-70. doi: 10.1007/s10930-022-10040-1. Epub 2022 Jan 10.

Abstract

To shed light onto the activation mechanism of vinculin, we carried out a detailed refinement of chicken vinculin and compared it to the human protein which is greater than 95% identical. Refinement resulted in a complete and significantly improved model. This model includes important elements such as a pro-rich strap region (PRR) and C-terminus. The conformation of the PRR stabilized by its inter- and intra-molecular contacts shows a dynamic, but relatively stable motif that constitutes a docking platform for multiple molecules. The contact of the C-terminus with the PRR suggests that phosphorylation of Tyr1065 might control activation and membrane binding. Improved electron densities showed the presence of large solvent molecules such as phosphates/sulfates and a head-group of PIP2. The improved model allowed for a computational stability analysis to be performed by the program Corex/Best which located numerous hot-spots of increased and decreased stability. Proximity of the identified binding sites for regulatory partners involved in inducing or suppressing the activation of vinculin to the unstable elements sheds new light onto the activation pathway and differential activation. This stability analysis suggests that the activation pathway proceeds by unfurling of the super-bundle built from four bundles of helices without separation of the Vt region (840-1066) from the head. According to our mechanism, when activating proteins bind at the strap region a separation of N and C terminal bundles occurs, followed by unfurling of the super-bundle and flattening of the general shape of the molecule, which exposes the interaction sites for binding of auxiliary proteins.

摘要

为了深入了解纽蛋白的激活机制,我们对鸡纽蛋白进行了详细的优化,并将其与序列相似度超过95%的人类蛋白进行了比较。优化得到了一个完整且显著改进的模型。该模型包含重要元件,如富含脯氨酸的带区(PRR)和C末端。PRR通过分子间和分子内接触得以稳定,其构象呈现出一种动态但相对稳定的基序,构成了多个分子的对接平台。C末端与PRR的接触表明,Tyr1065的磷酸化可能控制激活和膜结合。改进后的电子密度显示存在诸如磷酸盐/硫酸盐等大溶剂分子以及磷脂酰肌醇-4,5-二磷酸(PIP2)的头部基团。改进后的模型使得能够通过Corex/Best程序进行计算稳定性分析,该程序确定了许多稳定性增加和降低的热点区域。参与诱导或抑制纽蛋白激活的调节伙伴的已识别结合位点与不稳定元件的接近,为激活途径和差异激活提供了新的线索。这种稳定性分析表明,激活途径是通过由四束螺旋构建的超束展开进行的,而Vt区域(840 - 1066)与头部并未分离。根据我们提出的机制,当激活蛋白在带区结合时,N末端和C末端束会发生分离,随后超束展开,分子整体形状变平,从而暴露出辅助蛋白结合的相互作用位点。

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