Dear pymol users, I'm trying to properly represent a coarse-grained protein model that has an elastic network.
I would like to show the bonds that are part of the elastic network with a different color (and possibly representation) from the normal bonds between atoms. However, as far as I know, color settings are atom-based, so I wasn't able to do what I wanted, because all bonds that lead to an atom will always share the same color. The only solution I found was to create a copy of the protein with pseudoatoms and draw the elastic network there. However, I expect this has a negative effect on the performance, which is relevant since I plan to use this for molecular dynamics trajectories. Am I trying to do this the wrong way? Is it just unfeasible?
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