Figure 3

Macromolecular movement of calmodulin. A) The closed state of calmodulin (left, PDB code: 1MXE), the open state (right, PDB code: 3CLN) and a standard whole molecule superposition (middle). B) The truly-local and pseudo-local COLORES scores displayed on the closed form. On the left: the local score showing two structurally well-conserved regions (thin) and one disturbed hinge (thick); the yellow helix is the bonded peptide. On the right side: the global score, which fails to identify these key structural features (displayed on the same structure, peptide is omitted). C) The profile of different (normalized) scores along the protein sequence: COLORES "truly-local" score (red) using standard values, COLORES "truly-local" score using heuristic penalties (green), and MOLMOL "local RMS" (blue).