Dongmo Foumthuim Cedrix J
Department of Chemical Sciences (DisC), University of Padova, via Marzolo 1, Padova 35131 Italy.
J Phys Chem B. 2025 May 29;129(21):5150-5165. doi: 10.1021/acs.jpcb.5c00785. Epub 2025 May 19.
The effect of cosolvents urea and trimethylamine--oxide (TMAO) on hydrophobic association mechanisms is investigated by employing molecular dynamics simulations and free energy calculations. Three nonpolar moieties are used to model the hydrophobic interactions: -hexane CH, neopentane CH, and cyclohexane cCH. These hydrophobic model systems are subsequently immersed in four different solvent models with varied composition: pure water, aqueous urea, aqueous TMAO, and mixed urea-TMAO ternary solution. The solute-solute potentials of mean force (PMF), solute-water, and solute-cosolvent distribution functions are reported. Both urea and TMAO are found to have only moderate effects on hydrophobic associations, thereby mainly acting as glue bridging between pairwise hydrophobic moieties holding them together. Furthermore, it is seen that TMAO mediates the formation of hydrogen bonds between its oxygen atom and water or urea while still favoring the hydrophobic contacts with the hydrophobic surface, thereby acting as a kind of amphiphile displacing water or urea from the inner solvation shell of the hydrophobic solutes investigated here to the bulk. The analyses of the enthalpic and entropic contributions to PMFs indicate that configurations at the contact minimum are both enthalpically and entropically favorable, though, with a large entropic contribution, whereas solute-separated minimum configurations are dominantly enthalpically driven, induced by stabilizing water hydrogen bonding. To provide a more factual and general perspective to the simplistic hydrophobic models, simulations are also performed on a realistic-like hydrophobic model, β2-microglobulin (β2m), a paradigmatic protein model for amyloid studies. Results show that TMAO protects the β2m folded state by its strong preferential exclusion from the close vicinity of its surface. Contrariwise, urea moieties likely accumulate at the protein surface, thereby displacing water molecules from the hydration shell to the bulk, thus promoting an unfolded state of the protein.
通过分子动力学模拟和自由能计算,研究了助溶剂尿素和氧化三甲胺(TMAO)对疏水缔合机制的影响。使用三个非极性部分来模拟疏水相互作用:正己烷CH、新戊烷CH和环己烷cCH。随后将这些疏水模型系统浸入四种不同组成的溶剂模型中:纯水、尿素水溶液、TMAO水溶液和尿素 - TMAO混合三元溶液。报告了溶质 - 溶质平均力势(PMF)、溶质 - 水和溶质 - 助溶剂分布函数。发现尿素和TMAO对疏水缔合的影响都较小,主要起到将成对疏水部分连接在一起的胶水作用。此外,可以看到TMAO在其氧原子与水或尿素之间介导氢键的形成,同时仍然有利于与疏水表面的疏水接触,从而起到一种两亲物的作用,将水或尿素从本文研究的疏水溶质的内溶剂化壳层置换到本体相中。对PMF的焓和熵贡献的分析表明,在接触最小值处的构型在焓和熵方面都是有利的,尽管熵的贡献很大,而溶质分离的最小值构型主要是由稳定水氢键诱导产生的焓驱动。为了给简单的疏水模型提供更实际和普遍的观点,还对一个类似真实的疏水模型β2微球蛋白(β2m)进行了模拟,β2m是淀粉样蛋白研究的典型蛋白质模型。结果表明,TMAO通过强烈优先排斥在其表面附近而保护β2m的折叠状态。相反,尿素部分可能在蛋白质表面积累,从而将水分子从水合壳层置换到本体相中,从而促进蛋白质的未折叠状态。