I have a c-alpha only model and I would like to visualize both helices and sheets based on my own custom SS assignments (via "alter"). Altering a residue's SS assignment to helix or loop (ss="H" or ss="L") is fine and can be visualized. However, altering a residue's SS assignment to sheet (ss="S") causes that residue to disappear. Again, this is c-alpha only and I am visualizing in "cartoon automatic" mode.
Any suggestions for visualizing the sheets in this case would be greatly appreciated.