Table 2. Correlation between the Experimental Binding Free Energy ΔGexp with the Rupture Force Fmax, Pulling Work Wpull, Rupture Time tmax, Binding ΔGbind‡ and Unbinding ΔGunbind Barriers, and Jarzynski’s Binding Free Energy ΔGneqJar, Obtained in the SMD Simulation for Six Complexesa.
thrombin | factor Xa | β-lactamase | HIV-1 | MCL-1 | CDK-2 | |
---|---|---|---|---|---|---|
Fmax | 0.81 | 0.78 | 0.82 | 0.64 | 0.80 | 0.66 |
Wpull | 0.84 | 0.74 | 0.84 | 0.68 | 0.79 | 0.73 |
ln(tmax) | 0.75 | 0.75 | 0.84 | 0.70 | 0.83 | 0.61 |
ΔGunbind‡ | 0.79 | 0.76 | 0.80 | 0.58 | 0.78 | 0.69 |
ΔGbind‡ | 0.81 | 0.77 | 0.83 | 0.63 | 0.77 | 0.68 |
ΔGneqJar | 0.86 | 0.83 | 0.89 | 0.80 | 0.83 | 0.81 |
Results for β-lactamase were taken from Truong et al and Li.32