Computational Biophysics, Faculty of Science and Technology, University of Twente, P.O. Box 217, 7500 AE Enschede, The Netherlands.
J Chem Phys. 2009 Nov 28;131(20):205101. doi: 10.1063/1.3266839.
The free energy profile of pore formation in a lipid membrane, covering the entire range from a density fluctuation in an intact bilayer to a large tension-stabilized pore, has been calculated by molecular dynamics simulations with a coarse-grained lipid model. Several fixed elongations are used to obtain the Helmholtz free energy as a function of pore size for thermodynamically stable, metastable, and unstable pores, and the system-size dependence of these elongations is discussed. A link to the Gibbs free energy at constant tension, commonly known as the Litster model, is established by a Legendre transformation. The change of genus upon pore formation is exploited to estimate the saddle-splay modulus or Gaussian curvature modulus of the membrane leaflets. Details are provided of the simulation approach, which combines the potential of mean constraint force method with a reaction coordinate based on the local lipid density.
通过分子动力学模拟,使用粗粒脂质模型,计算了脂质膜形成孔的自由能分布,涵盖了从完整双层中的密度涨落到大张力稳定孔的整个范围。使用几种固定的伸长率来获得亥姆霍兹自由能作为孔径的函数,用于热力学稳定、亚稳定和不稳定的孔,并且讨论了这些伸长率的系统尺寸依赖性。通过勒让德变换,与恒定张力下的吉布斯自由能建立了联系,通常称为利斯特模型。通过孔形成时的亏格变化来估计膜叶的鞍形扭曲模量或高斯曲率模量。提供了模拟方法的详细信息,该方法结合了平均约束力方法的势与基于局部脂质密度的反应坐标。