Franz, I agree that it would nice for PyMOL to handle this automatically, but I personally think that extra long CA-CB bonds look almost as goofy as sidechains hanging in space.
As it stands, there are two ways to handle this annoyance manually, assuming that you're using version 0.95 beta: 1) put the mouse into editing mode and then just ctrl-shift-left-click-and-drag the CA atoms back onto the sheet. 2) use the command: flag no_smooth, atom-selection, set for those sidechains you wish to show. Note that this has the effect of "unflattening" the sheet for just those residues you wish to show. For example: show cartoon flag no_smooth, resi 12+16+19, set rebuild Cheers, Warren > Subject: Some Ideas for PyMol > > Hi, > I would like to emphasize some points that I think are > missing in PyMol (and I think it's not too difficult to put > in). When you draw carton sheets with the flat option turned > on, you can't show any sidechain in there, because it's not > connected.... > Why don't you put an option that make the CB-CA bond a little > bit longer to reach the sheet? (this feature exist in a > script for MolMol) It will not give away any important > information, but it will make nicer images. > Thank you for answering (especially if this is already > possible, and you have to explain it too me) >
