Figure 2.
The thermodynamic perturbation cycle between the compounds DPH and 2-MXP. A similar cycle would apply to the free energy change from DPH to the other three compounds (2-Cl-DPH, 3-MXP and 4-MXP). Here we highlight the complexity of the full systems in each step of the transformation as well as the components (compounds, protein, ions and membrane) that are boxed. ∆G1 represents the unbound solvent (ligand in water) state while ∆G4 represents the bound (protein-ligand complex in water) state.