The PyMOL mutagenesis feature is very simple. Click "Wizard -> Mutagenesis" and it starts right up. Select your residue to change, choose the mutation from the menu, and click Apply. Save the coordinates and you're done. SwissPDBViewer has a very similar workflow, and I've used it before as well, but the interface is a bit less intuitive.

use pymol & VMD is very easy to add and delet amino acids

Hi Tobias and Ibrahim,

thanks for your reply. I workes with Pymol before but only to highlight parts of already calculated structures, so I don't know where to find this option. Maybe you could help me Ibrahim.

Tobias, Swiss-PDBViever seems to be a nice tool. It works really well but due to the fact that I never worked with that before I'm not sure how I can change the single Aminoacids. Any suggestions?

Best Lukas

The PyMOL mutagenesis feature is very simple. Click "Wizard -> Mutagenesis" and it starts right up. Select your residue to change, choose the mutation from the menu, and click Apply. Save the coordinates and you're done. SwissPDBViewer has a very similar workflow, and I've used it before as well, but the interface is a bit less intuitive.

You can try modeller

http://salilab.org/modeller/wiki/Mutate%20model

you can try VMD, Chimera, Pymol for doing it, just open your single amino acid and save as *.pdb