Figure 6
DEN parameter grid search for the re-refinement of full-length p97 in complex with ADP at 4.25 Å resolution. For each parameter combination 20 DEN refinement repeats were carried out. (a) The resulting Rfree values are represented in a contour plot as a function of the γ and wDEN parameters. (b) The r.m.s.d.s of the corresponding structures to the best available structure of p97 in complex with ADP (PDB entry 3cf3
) are also shown as a contour plot. There is good agreement between the r.m.s.d. and Rfree contour plots. |