Simulating the chromatin mediated phase separation of model proteins with multiple domains

Simulation data related to the paper "Simulating the chromatin mediated phase separation of model proteins with multiple domains". We perform simulations of a system containing simple model proteins and a polymer representing chromatin. We study the interplay between protein-protein and protein-chromatin interactions, and the resulting condensates which arise due to liquid-liquid phase separation, or a via a 'bridging-induced attraction' mechanism. We uncover a regime where protein droplets only form due to interaction with the polymer; here, unlike a standard phase separating system, droplet density rather than size varies with the overall protein concentration. We also observe that protein dynamics within droplets slow down as chromatin is absorbed. If the protein-protein interactions have a strictly limited valence, fractal or gel-like condensates are instead observed. Overall, our results provide biologically relevant insights into the general nature of protein-chromatin condensates in living cells.