Comparative assessment of physics-based in silico methods to calculate relative solubilities

IF 3 3区 生物学 Q3 BIOCHEMISTRY & MOLECULAR BIOLOGY Journal of Computer-Aided Molecular Design Pub Date : 2024-10-29 DOI:10.1007/s10822-024-00576-y
Adiran Garaizar Suarez, Andreas H. Göller, Michael E. Beck, Sadra Kashef Ol Gheta, Katharina Meier
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Abstract

Relative solubilities, i.e. whether a given molecule is more soluble in one solvent compared to others, is a critical parameter for pharmaceutical and agricultural formulation development and chemical synthesis, material science, and environmental chemistry. In silico predictions of this crucial variable can help reducing experiments, waste of solvents and synthesis optimization. In this study, we evaluate the performance of different physics-based methods for predicting relative solubilities. Our assessment involves quantum mechanics-based COSMO-RS and molecular dynamics-based free energy methods using OPLS4, the open-source OpenFF Sage, and GAFF force fields, spanning over 200 solvent–solute combinations. Our investigation highlights the important role of compound multimerization, an effect which must be accounted for to obtain accurate relative solubility predictions. The performance landscape of these methods is varied, with significant differences in precision depending on both the method used and the solute considered, thereby offering an improved understanding of the predictive power of physics-based methods in chemical research.

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对基于物理的计算相对溶解度的硅学方法进行比较评估
相对溶解度,即特定分子在一种溶剂中是否比在其他溶剂中更易溶解,是医药和农业配方开发、化学合成、材料科学和环境化学的一个关键参数。对这一关键变量进行硅学预测有助于减少实验、溶剂浪费和合成优化。在本研究中,我们评估了不同物理方法在预测相对溶解度方面的性能。我们的评估涉及基于量子力学的 COSMO-RS 和基于分子动力学的自由能方法,使用 OPLS4、开源 OpenFF Sage 和 GAFF 力场,涵盖 200 多种溶剂-溶质组合。我们的研究强调了化合物多聚化的重要作用,要获得准确的相对溶解度预测,必须考虑到这种效应。这些方法的性能各不相同,其精度因所使用的方法和所考虑的溶质而存在显著差异,从而使人们更好地了解了基于物理的方法在化学研究中的预测能力。
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来源期刊
Journal of Computer-Aided Molecular Design
Journal of Computer-Aided Molecular Design 生物-计算机:跨学科应用
CiteScore
8.00
自引率
8.60%
发文量
56
审稿时长
3 months
期刊介绍: The Journal of Computer-Aided Molecular Design provides a form for disseminating information on both the theory and the application of computer-based methods in the analysis and design of molecules. The scope of the journal encompasses papers which report new and original research and applications in the following areas: - theoretical chemistry; - computational chemistry; - computer and molecular graphics; - molecular modeling; - protein engineering; - drug design; - expert systems; - general structure-property relationships; - molecular dynamics; - chemical database development and usage.
期刊最新文献
Understanding the relationship between preferential interactions of peptides in water-acetonitrile mixtures with protein-solvent contact surface area Identification of novel inhibitors targeting PI3Kα via ensemble-based virtual screening method, biological evaluation and molecular dynamics simulation Computational Identification and Illustrative Standard for Representation of Unimolecular G-Quadruplex Secondary Structures (CIIS-GQ) Comparative assessment of physics-based in silico methods to calculate relative solubilities Steered molecular dynamics simulation as a post-process to optimize the iBRAB-designed Fab model
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