Sandia National Laboratories, Albuquerque, New Mexico 87185-0754, USA.
Phys Chem Chem Phys. 2012 Feb 7;14(5):1728-34. doi: 10.1039/c2cp22593j. Epub 2011 Dec 20.
While performing molecular dynamics simulations of water or aqueous solutions in a slab geometry, such as at mineral surfaces, it is important to match bulk water density in the diffuse region of the model system with that expected for the appropriate experimental conditions. Typically, a slab geometry represents parallel surfaces with a variable region of confined water (this region can range in size from a few Ångstroms to many tens of Ångstroms). While constant-pressure simulations usually result in appropriate density values in the bulk diffuse region removed from either surface, constant-volume simulations have also been widely used, sometimes without careful consideration of the method for determining water content. Simulations using two thermodynamic ensembles as well as two methods for calculating the water-accessible volume have been investigated for two distinct silicate surfaces-hydrophilic cristobalite (111) and hydrophobic pyrophyllite (001). In cases where NPT simulations are not feasible, a simple geometry-based treatment of the accessible volume can be sufficient to replicate bulk water density far from the surface. However, the use of the Connolly method can be more appropriate in cases where a surface is less well-defined. Specific water-surface interactions (e.g., hydrophobic repulsion) also play a role in determining water content in a confined water simulation. While reported here for planar surfaces, these results can be extended to an interface with any solvent, or to other types of surfaces and geometries.
在进行水或水溶液的分子动力学模拟时,采用平板几何形状,例如在矿物表面,重要的是要使模型系统的弥散区域中的体相密度与适当的实验条件下的预期密度相匹配。通常,平板几何形状表示具有约束水的可变区域的平行表面(该区域的尺寸可以从几个埃到数十个埃)。虽然在远离任何一个表面的体相弥散区域中,恒压模拟通常会导致适当的密度值,但恒容模拟也被广泛使用,有时没有仔细考虑确定含水量的方法。已经研究了两种热力学系综以及两种计算可及体积的方法,以研究两种不同的硅酸盐表面——亲水方石英(111)和疏水叶腊石(001)。在无法进行 NPT 模拟的情况下,简单的基于几何形状的可及体积处理方法足以在远离表面的地方复制体相密度。但是,在表面定义不太明确的情况下,Connolly 方法的使用可能更为合适。特定的水-表面相互作用(例如,疏水排斥)也在确定约束水中的含水量方面发挥作用。虽然这里报道的是平面表面,但这些结果可以扩展到任何溶剂的界面,或其他类型的表面和几何形状。