Il giorno mar, 28/11/2006 alle 11.22 -0500, matthew.frank...@imclone.com ha scritto:
> > Dear Andrea - > > You should try using the Gerstein Morph Server: > http://www.molmovdb.org/molmovdb/morph/ > > The core algorithm uses CNS, so if your structure is parsed properly by > CNS, it should emerge from the server looking OK. You'll get a small movie > back from the server, and you can also ask it to send you the PDB files > used for each frame, so you can make your own movies in Pymol. > Thanks a lot for your reply, unfortunately I've already tried that server and I've seen that also in that case, the ligand is stripped out.I obtain movies with only the protein movements. I don't know if i have problems with my pdbs: I have 245 residues + 1 ligand (246). it has the ATOM and not the HETATM indication, could be this a problem? > For making movies in complicated situations like this, I've usually used > script files to explicitly define each frame of the movie: > > load file1.pdb > (rendering commands) > ray 2400,2400 > png frame1.png > delete file1 > load file2.pdb > etc... > > You get a long script file, but you can use a text editor to copy & paste > the text blocks. I think that the resolution or quality could be a useful setting to add in the program to overcome this "manual" procedure. > > Hope that helps, > Thanks, it helped me Andrea
