Peter, 1- Yes I've also found that the umbrella simulation is exactly that I need. Now I'm studing this tutorial more carefully.
2- In other words my second question was: in what exactly situations ( e.g some kind of point mutation) the unbiassed MD may be enought to detect unstability of the system (one of that examples you've already mentioned with the Lys Arg substitutions in TM region ) and in what cases the biassed MD (e.g the PMF) may be needed? James
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