Figure 4.

Contact-based reaction coordinate shows opsin and Meta-I ensembles are more heterogeneous. The average transition is shown for all 24 trajectories as a function of simulation time. This value is calculated using Eq. 1, where contacts are computed on a per-residue basis using side-chain centers of mass. Data is averaged over the six independent simulations in each of the four ensembles with error bars representing the standard deviation. The single dark-state simulation from Grossfield et al. (45) is shown for reference. To see this figure in color, go online.