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Kinetics of Drug Binding and Residence Time
Annual Review of Physical Chemistry ( IF 14.7 ) Pub Date : 2019-06-07 00:00:00 , DOI: 10.1146/annurev-physchem-042018-052340
Mattia Bernetti 1 , Matteo Masetti 1 , Walter Rocchia 2 , Andrea Cavalli 1, 3
Affiliation  

The kinetics of drug binding and unbinding is assuming an increasingly crucial role in the long, costly process of bringing a new medicine to patients. For example, the time a drug spends in contact with its biological target is known as residence time (the inverse of the kinetic constant of the drug-target unbinding, 1/koff). Recent reports suggest that residence time could predict drug efficacy in vivo, perhaps even more effectively than conventional thermodynamic parameters (free energy, enthalpy, entropy). There are many experimental and computational methods for predicting drug-target residence time at an early stage of drug discovery programs. Here, we review and discuss the methodological approaches to estimating drug binding kinetics and residence time. We first introduce the theoretical background of drug binding kinetics from a physicochemical standpoint. We then analyze the recent literature in the field, starting from the experimental methodologies and applications thereof and moving to theoretical and computational approaches to the kinetics of drug binding and unbinding. We acknowledge the central role of molecular dynamics and related methods, which comprise a great number of the computational methods and applications reviewed here. However, we also consider kinetic Monte Carlo. We conclude with the outlook that drug (un)binding kinetics may soon become a go/no go step in the discovery and development of new medicines.

中文翻译:


药物结合动力学和停留时间

在将新药带给患者的漫长而昂贵的过程中,药物结合和解除结合的动力学正扮演着越来越关键的角色。例如,药物与生物靶标接触所花费的时间称为停留时间(药物靶标未结合的动力学常数的倒数,1 / k off)。最近的报道表明,停留时间可以预测体内的药物疗效,甚至比常规的热力学参数(自由能,焓,熵)更有效。在药物发现计划的早期阶段,有许多实验和计算方法可预测药物靶标的停留时间。在这里,我们审查和讨论估计药物结合动力学和停留时间的方法学方法。我们首先从理化的角度介绍药物结合动力学的理论背景。然后,我们将从实验方法及其应用开始,转向药物结合和解结合动力学的理论和计算方法,来分析该领域的最新文献。我们承认分子动力学和相关方法的核心作用,其中包含了本文介绍的大量计算方法和应用。但是,我们也考虑动力学蒙特卡洛。我们得出的结论是,药物(非)结合动力学可能很快会成为新药发现和开发中的通过/不通过步骤。

更新日期:2019-06-07
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