Fig 3. Molecular dynamics simulation models.

Four models were constructed with different protein-lipid molar ratios (1:50, 1:75, 1:100, 1:150) between the proteins (cyan) and lipids (gray), and a periodic boundary condition in all directions (noted with red dashed lines). Water molecules and ions are not shown for clarity. The lipid component of the system consists of 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (POPC) and 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphoglycerol (POPG) in a ratio of 8:2. The cross-sectional area of the system which was proportional to the channel direction was calculated.