Tourdot Richard W, Ramakrishnan N, Radhakrishnan Ravi
Department of Chemical and Biomolecular Engineering, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA.
Department of Bioengineering, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA.
Phys Rev E Stat Nonlin Soft Matter Phys. 2014 Aug;90(2):022717. doi: 10.1103/PhysRevE.90.022717. Epub 2014 Aug 25.
Curvature-sensing and curvature-remodeling proteins, such as Amphiphysin, Epsin, and Exo70, are known to reshape cell membranes, and this remodeling event is essential for key biophysical processes such as tubulation, exocytosis, and endocytosis. Curvature-inducing proteins can act as curvature sensors; they aggregate to membrane regions matching their intrinsic curvature; as well as induce curvature in cell membranes to stabilize emergent high curvature, nonspherical, structures such as tubules, discs, and caveolae. A definitive understanding of the interplay between protein recruitment and migration, the evolution of membrane curvature, and membrane morphological transitions is emerging but remains incomplete. Here, within a continuum framework and using the machinery of Monte Carlo simulations, we introduce and compare three free-energy methods to delineate the free-energy landscape of curvature-inducing proteins on bilayer membranes. We demonstrate the utility of the Widom test particle (or field) insertion methodology in computing the excess chemical potentials associated with curvature-inducing proteins on the membrane-in particular, we use this method to track the onset of morphological transitions in the membrane at elevated protein densities. We validate this approach by comparing the results from the Widom method with those of thermodynamic integration and Bennett acceptance ratio methods. Furthermore, the predictions from the Widom method have been tested against analytical calculations of the excess chemical potential at infinite dilution. Our results are useful in precisely quantifying the free-energy landscape, and also in determining the phase boundaries associated with curvature-induction, curvature-sensing, and morphological transitions. This approach can be extended to studies exploring the role of thermal fluctuations and other external (control) variables, such as membrane excess area, in shaping curvature-mediated interactions on bilayer membranes.
已知诸如发动蛋白、 epsin和Exo70等曲率感知和曲率重塑蛋白可重塑细胞膜,而这种重塑事件对于诸如微管形成、胞吐作用和胞吞作用等关键生物物理过程至关重要。曲率诱导蛋白可充当曲率传感器;它们聚集到与其固有曲率匹配的膜区域;还可在细胞膜中诱导曲率以稳定出现的高曲率、非球形结构,如微管、圆盘和小窝。对蛋白质募集与迁移之间的相互作用、膜曲率的演变以及膜形态转变的明确理解正在形成,但仍不完整。在此,我们在连续介质框架内并利用蒙特卡罗模拟机制,引入并比较三种自由能方法来描绘曲率诱导蛋白在双层膜上的自由能景观。我们展示了维登测试粒子(或场)插入方法在计算与膜上曲率诱导蛋白相关的过量化学势方面的效用——特别是,我们使用这种方法来追踪在蛋白质密度升高时膜中形态转变的起始。我们通过将维登方法的结果与热力学积分和贝内特接受率方法的结果进行比较来验证这种方法。此外,维登方法的预测已针对无限稀释下过量化学势的解析计算进行了测试。我们的结果有助于精确量化自由能景观,也有助于确定与曲率诱导、曲率感知和形态转变相关的相界。这种方法可扩展到探索热涨落和其他外部(控制)变量(如膜过量面积)在塑造双层膜上曲率介导的相互作用中的作用的研究。