were also simulated with the Martini 2.0 coarse grained (CG) force field. The martinize.py script was used to automatically generate the CG representation of these systems. 47 System 7 was simulated to compare the efficiency of interpolating charges and potentials. The interactions in this system were modeled with the OPLS force field, because the GROMACS 3.3 release, on which the linear interpolation of potentials implementation was based, does not support the CMAP correction that is needed for the CHARMM36 force field. The amino acids Glu, Asp and His were modelled as tripeptides Ala-X-Ala with acetylated N-terminus (ACE) and N-methylamidated C-terminus (CT 3 ). The proteins were simulated with charged termini. The tripeptides were placed in a periodic rectangular box of dimensions 5×5×5 nm with approximately 4000 CHARMM TIP3P water molecules for the AA simulations and 950 polarizable water particles for the CG simulations. The water soluble protein cardiotoxin V was placed in a periodic rectangular box of 7.9×7.9×7.9 nm 3 and filled with 16500 CHARMM TIP3P water molecules for the AA simulations. For the CG simulations, the protein was placed inside a periodic rectangular box of 5.7×5.7×5.7 nm 3