McKinnon Joshua J, Spackman Mark A, Mitchell Anthony S
Department of Chemistry, School of Biological, Biomedical and Molecular Sciences, University of New England, Australia.
Acta Crystallogr B. 2004 Dec;60(Pt 6):627-68. doi: 10.1107/S0108768104020300. Epub 2004 Nov 11.
A new way of exploring packing modes and intermolecular interactions in molecular crystals is described, using Hirshfeld surfaces to partition crystal space. These molecular Hirshfeld surfaces, so named because they derive from Hirshfeld's stockholder partitioning, divide the crystal into regions where the electron distribution of a sum of spherical atoms for the molecule (the promolecule) dominates the corresponding sum over the crystal (the procrystal). These surfaces reflect intermolecular interactions in a novel visual manner, offering a previously unseen picture of molecular shape in a crystalline environment. Surface features characteristic of different types of intermolecular interactions can be identified, and such features can be revealed by colour coding distances from the surface to the nearest atom exterior or interior to the surface, or by functions of the principal surface curvatures. These simple devices provide a striking and immediate picture of the types of interactions present, and even reflect their relative strengths from molecule to molecule. A complementary two-dimensional mapping is also presented, which summarizes quantitatively the types of intermolecular contacts experienced by molecules in the bulk and presents this information in a convenient colour plot. This paper describes the use of these tools in the compilation of a pictorial glossary of intermolecular interactions, using identifiable patterns of interaction between small molecules to rationalize the often complex mix of interactions displayed by large molecules.
本文描述了一种探索分子晶体堆积模式和分子间相互作用的新方法,即利用赫希菲尔德表面对晶体空间进行划分。这些分子赫希菲尔德表面之所以如此命名,是因为它们源自赫希菲尔德的占有率划分,将晶体划分为分子(前分子)的球形原子总和的电子分布在晶体(前晶体)相应总和中占主导地位的区域。这些表面以一种新颖的视觉方式反映分子间相互作用,呈现出晶体环境中前所未见的分子形状图。可以识别出不同类型分子间相互作用的表面特征,并且这些特征可以通过对从表面到表面外部或内部最近原子的距离进行颜色编码,或者通过主表面曲率的函数来揭示。这些简单的方法提供了当前存在的相互作用类型的醒目而直观的图像,甚至反映了它们在分子间的相对强度。还展示了一种互补的二维映射,它定量总结了本体中分子经历的分子间接触类型,并以方便的颜色图呈现此信息。本文描述了如何使用这些工具来编制分子间相互作用的图像词汇表,利用小分子间可识别的相互作用模式来合理化大分子所显示的通常复杂的相互作用组合。