Fig. 5.
CG MD trajectories for the translocon containing either the hydrophobic (Blue-shaded) or hydrophilic (Red-shaded) substrate are initialized from open, partially open, and closed configurations of the lateral gate. (A) The lateral gate distance dLG for the trajectories is plotted as a function of simulation time. (B) The lateral gate surface area for the trajectories is plotted as a function of simulation time. Heavy lines indicate 1 ns rolling averages. Also shown are snapshots of the translocon at the end of the initially closed trajectory with hydrophilic substrate (C) and the initially open trajectory with hydrophobic substrate (D).