Modulating hydrogen-bond basicity within the context of protein-ligand binding: A case study with thrombin inhibitors that reveals a dominating role for desolvation
作者:Nader N. Nasief、Ahmed M. Said、David Hangauer
DOI:10.1016/j.ejmech.2016.09.038
日期:2017.1
of hydrogen bonding is a challenging but crucial task to improve our ability to design ligands with high affinity for protein hosts. To gain a deeper understanding of these aspects, we investigated a series of thrombin inhibitors in which the basicity of the ligand's group that accepts an H-bond from Gly216 was modulated via bioisosterism; e.g., a C=O acceptor was made electron deficient or rich via
理解氢键的细微方面是提高我们设计对蛋白质宿主具有高亲和力的配体的能力的一项艰巨而关键的任务。为了对这些方面有更深入的了解,我们研究了一系列凝血酶抑制剂,其中通过生物立体异构调节了从Gly216接受H键的配体基团的碱性。例如,通过相邻部分的生物等排代换,使C = O受体电子缺乏或富集。尽管当增加H键的碱性时(由于与蛋白质更强的H键结合),预期配体的结合亲和力会提高,但我们在此提供的数据出乎意料地显示出相反的趋势。该趋势归因于去溶剂化在确定相对结合亲和力中的主导作用。例如,H-键碱性的降低减少了去溶剂化损失,并且如实验观察到的,提高了结合亲和力,因为去溶剂化损失的减少主导了配体与蛋白质相互作用的净贡献的变化。因此,当前的研究表明,去溶剂化可能是造成明显的反直觉的结构-活性关系(SAR)结果的主要原因,并且表明了解这一因素可以提高我们预测结合亲和力和设计更有效配体的能力。