Dear Gmx Users, I want to simulate protein based on my own LJ parameters between different types of residues. I will be given sets of parametrs for given sizes of beads to then apply them and valide by atomistic simulations. My question: 1. What is the best way to build different sizes of beads for given pdb file? Any softwarer? 2. How can I get bonded parametrs between my beads?
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