I have read the manual on how to have a cartoon representation of a protein and have one or more sidechains visible "and" connected to the ribbon (versus floating in space, see pg 39 manual). But I can not get that to happen following the instructions (using GUI or command line). Also, how do you get just the sidechain to be visible and not the backbone N and O? Can not find a way to select just one atom to turn them off, always get the whole residue using the GUI.
My goal is to have a cartoon representation of a protein with several connected sidechains visible with a ligand in the active site in spheres (CPK). It seems to me that I need to duplicate the structure and use the cartoon representation for the backbone/sidechains on molecule 1 and spheres for the ligand on molecule 2, is this necessary or is there another way? And is there a way to display all the residues/atoms in a structure and turn them on/off in the GUI?
Thank you for your help,
Gary S. Laco, Ph.D.
Assistant Professor of Biochemistry