Chemical-State-Dependent Free Energy Profile from Single-Molecule Trajectories of Biomolecular Motors: Application to Processive Chitinase

The mechanism of biomolecular motors has been elucidated using single-molecule experiments for visualizing motor motion. However, it remains elusive how changes in the chemical state during catalytic cycle lead to unidirectional motions. In this study, we use trajectories estimate an underlying diffusion model with chemical-state-dependent free energy profile. To consider nonequilibrium driven by consumed motors, develop a novel framework based on hidden Markov model, wherein switching among multiple profiles occurs reflecting motors. method is tested simulation and applied processive chitinase, linear that hydrolysis single chitin chain. profile burnt-bridge Brownian ratchet chitinase determined. allows us connect motion