Figure 3

RMSD of the transmembrane regions shows the protein structures have equilibrated. Root mean squared deviation (RMSD) was calculated for the Cα atoms of the transmembrane domains and is plotted over simulation time. The transmembrane regions of the protein models do not change much compared to the starting structures over the course of simulations, as the final RMSD values are between 2.0 and 3.5 Å.