Fig 4.
Qualitative free energy landscapes. All wild-type runs were histogrammed to compute the normalized probability p(X, Y) as a function of the reaction coordinates X and Y. These probabilities were then converted to an effective free energy via the relation Feff ∼ −ln P. The free energies are given relative to the unfolded state. Although not an exact calculation, it gives a rough idea of where the minima and the saddle regions are located. When drms and energy are the reaction coordinates (Left), there are three distinct minima: unfolded, intermediate, and the native states. In contrast, when drms and W43 burial are used (Right), only two distinct minima (buried and exposed) are seen.