R. D. Berlin Center for Cell Analysis and Modeling, University of Connecticut School of Medicine, Farmington, CT 06030.
Program in Molecular Medicine, Toronto, ON M5G 1E8, Canada.
Mol Biol Cell. 2024 Sep 1;35(9):ar122. doi: 10.1091/mbc.E24-01-0030. Epub 2024 Jul 24.
Cellular condensates often consist of 10s to 100s of distinct interacting molecular species. Because of the complexity of these interactions, predicting the point at which they will undergo phase separation is daunting. Using experiments and computation, we therefore studied a simple model system consisting of polySH3 and polyPRM designed for pentavalent heterotypic binding. We tested whether the peak solubility product, or the product of the dilute phase concentration of each component, is a predictive parameter for the onset of phase separation. Titrating up equal total concentrations of each component showed that the maximum solubility product does approximately coincide with the threshold for phase separation in both experiments and models. However, we found that measurements of dilute phase concentration include small oligomers and monomers; therefore, a quantitative comparison of the experiments and models required inclusion of small oligomers in the model analysis. Even with the inclusion of small polyPRM and polySH3 oligomers, models did not predict experimental results. This led us to perform dynamic light scattering experiments, which revealed homotypic binding of polyPRM. Addition of this interaction to our model recapitulated the experimentally observed asymmetry. Thus, comparing experiments with simulation reveals that the solubility product can be predictive of the interactions underlying phase separation, even if small oligomers and low affinity homotypic interactions complicate the analysis.
细胞凝聚物通常由 10 到 100 种不同的相互作用的分子组成。由于这些相互作用的复杂性,预测它们将经历相分离的点是令人生畏的。因此,我们使用实验和计算研究了一个由聚 SH3 和聚 PRM 组成的简单模型系统,这些分子设计用于五价异质结合。我们测试了峰值溶解度产物,即每个组分的稀相浓度的乘积,是否是相分离开始的预测参数。滴定每种组分的相等总浓度表明,最大溶解度产物与实验和模型中相分离的阈值大致吻合。然而,我们发现稀相浓度的测量包括小寡聚体和单体;因此,实验和模型的定量比较需要在模型分析中包含小寡聚体。即使包含小的 polyPRM 和 polySH3 寡聚体,模型也无法预测实验结果。这促使我们进行动态光散射实验,该实验揭示了 polyPRM 的同型结合。将这种相互作用添加到我们的模型中,再现了实验观察到的不对称性。因此,将实验与模拟进行比较表明,即使小寡聚体和低亲和力的同型相互作用使分析复杂化,溶解度产物也可以预测相分离的相互作用。