Decipher the Mechanisms of Protein Conformational Changes Induced by Nucleotide Binding through Free-Energy Landscape Analysis: ATP Binding to Hsp70
Figure 5
Analysis of 1-D FEPs of CGDAs γ.
Mapping of the dissimilarity index 1-H between the FEPs of APO/ADP (top panel), APO/ATP (middle panel) and ADP/ATP (bottom panel) onto the structure of DnaK (PDB ID: 2KHO) [70]. Residues belonging to the CGDAs γ which are strongly influenced (1-H>0.7), significantly influenced (0.3≤1-H<0.7) and weakly influenced by the nucleotide (1-H≤0.3) are shown with large red, medium yellow and small cyan spheres, respectively. The color code of the protein structure is the same as in Fig. 1. These figures were prepared with PyMOL [http://www.pymol.org].