Table 1. Summary of atomic-resolution simulations of CYP2C9 models.
Model | Properties2 | Time (ns) | Ensemble (γ dyn/cm) | Area per lipid (Å2) |
1R9O1 | SOL2, aF'G' helices2 b, APO2 c | 28.28 | NPT | - |
1R9O1+FLO1 | SOL, F'G' helices, PROD2 c | 27.84 | NPT | - |
1R9O2 | SOL, FG loop2 b, APO | 27.78 | NPT | - |
1R9O2+FLO | SOL, FG loop, PROD | 27.4 | NPT | - |
1R9O2+FLU1 | SOL, FG loop, SUBS2 c | 25.98 | NPT | - |
1R9OH1+POPC | MEM2 a, F'G' helices, APO | 11.25 | NPγT (γ = 50) | 64.13±0.43 |
18.75 | NPγT (γ = 60) | 67.08±0.96 | ||
1R9OH1+FLO+POPC | MEM, F'G' helices, PROD | 11.25 | NPγT (γ = 50) | 64.43±0.58 |
18.75 | NPγT (γ = 60) | 69.23±1.16 | ||
1R9OH2+POPC | MEM, FG loop, APO | 11.25 | NPγT (γ = 50) | 62.02±1.03 |
18.75 | NPγT (γ = 60) | 64.09±0.73 | ||
1R9OH2+FLO+POPC | MEM, FG loop, PROD | 11.25 | NPγT (γ = 50) | 62.76±0.59 |
18.75 | NPγT (γ = 60) | 65.67±0.66 |
1. FLO = 4′-hydroxy-flurbiprofen, FLU = Flurbiprofen.
2. The following properties differ among the simulated CYP2C9 models.
a. Solubility (water soluble ‘SOL’ and membrane-bound ‘MEM’ forms).
b. Structure of the FG loop (with F' and G' helices or extended loop).
c. Ligand-bound state (apo ‘APO’, product-bound ‘PROD’ and substrate-bound ‘SUBS’ forms).