All-atom Molecular Dynamics Simulation of the Bacterial Cytoplasm

How biomolecules behave in crowded cellular environments has been an important question in life science. Researchers at RIKEN and Michigan State University made an atomic model of the bacterial cytoplasm using the existing experimental information. They also developed highly-parallelized MD software, GENESIS, and carried out large-scale MD simulations of the model by using GENESIS on K computer. From detailed analysis of the simulation trajectories, they discovered strange behaviors of biomolecules in the cytoplasm.