I'm currently working on a fourth year molecular biology project and I'm having some trouble importing files into pymol. What I want to do is create a custom ligand and import it into pymol with a pdb protein file. So far, I have tried using marvin sketch to create the molecule and trying to import the file via different file types (pdb,cube,mol ect...). Pymol either crashes or it makes the original protein disappear. Does anyone have any suggestions? Should I maybe use a new program altogether?