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. 2011 Jul 1;6(7):e20853. doi: 10.1371/journal.pone.0020853

Figure 4. Comparison of the folding free energies Inline graphic of 6 designed sequences and of the real sequence for L7/L12 as a function of the root mean square distance (Inline graphic) from the target structure.

Figure 4

The profile of Inline graphic (black dashed line) for 5 sequences selected from the ensemble of those with the lowest free energy in sequence space (LowF in Fig. 3) is compared with the profile (red line) obtained for a sequence with lower energy (LowE) than the previous ones. The free energy has been calculated at the same temperature Inline graphic. The folding efficiency of the LowF sequences is very different from the one of LowE as the latest one cannot reach a proper folded structure. Finally we also plot the folding free energy for the real sequence (Real) of the same protein L7/L12 (point dash blue line). At Inline graphic, we found the minimum of Inline graphic to be around 1.6 Inline graphic (Inline graphic RMSD), indicating that the designed proteins are folded correctly on their targets.