[chimerax-users] How to select best pose from docking model?

[Luigi Marongiu, PhD]

Dear all,
I am new to docking analysis. I have obtained a list of poses from VINA analysis, but what of them shall I choose?
Is the first the best choice?
The problem is that, according to the pose, the ligand binds the protein in a different position. Different ligands might or might not bind on the same position, thus choosing the right pose is essential to determine whether there is a position that allows binding of multiple molecules.
What is the procedure to determine whether such a multiple binding site exists?
What is the protocol to choose the right pose?
Thank you
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