Hi 

I followed similar " marker link "  trick proposed by Tom for making new  bonds between a selection of  Serine residue of protein molecule with hydroxy group functionality of ligand molecule typing the below mentioned  command  in ChimeraX command line . 

marker link #1:54@OG #2:PNS@HOP1@SG radius 0.2

However, I am repeatedly getting following error.  " TypeError: Cannot bond atoms in different molecules "

Can you plz suggest the correct command or alternative way for making new bond between Protein & ligand molecules.  


Thanks

Arun