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采用 DFT 评估一些碘中心卤键和其他一些实验报道晶体结构中非共价相互作用的物理性质。

A DFT assessment of some physical properties of iodine-centered halogen bonding and other non-covalent interactions in some experimentally reported crystal geometries.

机构信息

Department of Chemical System Engineering, School of Engineering, The University of Tokyo, 7-3-1, Hongo, Bunkyo-ku, 113-8656, Japan.

出版信息

Phys Chem Chem Phys. 2018 Jun 6;20(22):15316-15329. doi: 10.1039/c8cp01085d.

Abstract

A set of six binary complexes that feature iodine-centered halogen bonding, extracted from structures deposited in the Cambridge Structure Database, has been examined computationally using density functional theory calculations with the M06-2X global hybrid, and dispersion corrected B3LYP-D3 and B97-D3, to determine their equilibrium geometries, binding energies and electronic properties. The results show that gas phase calculations are very informative in evaluating what occurs in the solid state, even though these calculations ignore the importance of lattice packing and counter ion effects. The calculated binding energies for the non-covalent interactions responsible for these complexes lie between -4.15 and -7.48 kcal mol-1 (M06-2X), which enables us to characterize them as weak-to-moderate in strength. The basis set superposition error energies are calculated to vary between 0.60 and 2.42 kcal mol-1 for all the complexes examined, even though an all-electron QZP basis set used in the analysis was of quadrupole-ζ (plus polarization) quality. Dispersion is found to have a profound effect on the binding energy of some of these complexes, and was estimated to be as large as 5.0 kcal mol-1. For one complex, the crystal geometry could not be precisely reproduced using a gas phase calculation. While both halogen- and hydrogen-bonding interactions were found competitive, they cooperate with each other to determine the stable configuration of the binary complex. The molecular electrostatic surface potential, quantum theory of atoms in molecules, and reduced density gradient non-covalent Interaction models were utilized to arrive at a fundamental understanding of the various inter- and intra-molecular molecular interactions involved, as well as some other previously-overlooked non-covalent interactions that emerge in the modelling.

摘要

从剑桥结构数据库中提取了一组包含碘中心卤键的六个二元配合物,并用密度泛函理论计算(包括 M06-2X 全局杂化、色散校正 B3LYP-D3 和 B97-D3)对其进行了计算研究,以确定其平衡几何形状、结合能和电子性质。结果表明,气相计算在评估固态中发生的情况时非常有启发性,即使这些计算忽略了晶格堆积和抗衡离子效应的重要性。这些复合物中负责非共价相互作用的计算结合能介于-4.15 和-7.48 kcal mol-1(M06-2X)之间,这使我们能够将其特征化为弱至中等强度。即使在分析中使用了全电子 QZP 基组,基组叠加误差能也被计算为所有被检查复合物的 0.60 到 2.42 kcal mol-1 之间变化。发现分散对某些复合物的结合能有深远的影响,估计高达 5.0 kcal mol-1。对于一个复合物,使用气相计算无法精确再现晶体几何形状。虽然卤键和氢键相互作用都具有竞争性,但它们相互配合确定了二元配合物的稳定构型。分子静电表面势能、原子在分子中的量子理论和简化密度梯度非共价相互作用模型被用来深入了解所涉及的各种分子间和分子内相互作用,以及在建模中出现的一些以前被忽视的非共价相互作用。

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