[PyMOL] bonds in ligands for MD simulations?

Dear everyone, I have a MD simulation of coarse grain molecules, therefore not defined as typically for normal protein/ligands, but as beads. I want to represent it using Pymol, and need to define bonds between the beads. The problem is that I have 400 copies of my ligand, and all with the

Re: [PyMOL] XYZ trajectory file - unbond two atoms, insert a new one, and create new bonds.

Hi Pawel, only discrete objects have per-state bonding. In discrete objects, states have independent atom sets, which comes down to similar memory consumption like individual objects (split_states). PyMOL load example.xyz, discrete=1 If you want to make a movie, instead of using one discrete