[PyMOL] How to label a cartoon representation?

2011-10-30 Thread Piter_
Hi all. I have a protein structure in cartoon representation. It has 5 helices and iconnecting loops. I have colored 3 of the helices in to different color. now i want to add text label to them. How can I do it? Thanks. Petro.

Re: [PyMOL] How to label a cartoon representation?

2011-10-30 Thread Folmer Fredslund
Dear Petro, Text labels in PyMOL (http://pymolwiki.org/index.php/Label) are displayed per atom, so the usual way is to make a pseudoatom ( http://pymolwiki.org/index.php/Pseudoatom) for each helix label you want to make. Using selections this can be pretty straight forward. Let's say you have

[PyMOL] Preparation of the starting structure for the Gromacs simulation

2011-10-30 Thread James Starlight
Dear PyMol users! I want to prepare my pdb structure for MD simulation with gromacs 1- I want to place some CAP groups like ACE or NH2 to N and C termii of 1 and last residue of my protein, respectyally. I found possible option for this in the build- amono acids buit creted via this way ACE or