Figure 3

Comparison of local rmsd and rmsd _dev . a) Fragments that are encoded by the same structural letter in the bound and unbound forms. The rmsd _dev in this case is the rmsd _intra , which measures the intrinsic variability of structural letters. b) Fragments that are encoded by different structural letters in the bound and unbound forms, in the case where the structural letter substitution is isolated or at the extremity of a stretch of substitutions. c) Fragments that are encoded by different structural letters in the bound and unbound forms, in the case where the structural letter substitution appears in a stretch of substitution. The red line indicates the equality between local rmsd and rmsd _dev .