Hi
We solved several structures of a protein (in different ligand bound
form) using cryoEM. While I was able to get reasonable fewer clash score and
rotamer outlier in my best data set, in other data set with poor map quality, I
am getting lots of clashes and rotamers outlier. I am fixing these issues and
after refining the structure using phenix real space refinement (global
minimization, local grid search and adp), it's getting back to same old
structure with clashes. The reason is poor quality map. does anyone know a way
to fix this issue?
Thank you
Dhiraj
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