[PyMOL] Mutagenesis for DNA

2011-05-27 Thread Rajagopalan, Senapathy
Hi Everyone, Sorry if this is a dumb question, but can you use the mutagenesis tool mutate a DNA base…say make a A->G mutation? Coot can do it and I can see pymol does it easily for protein residues, but what about for DNA/RNA? Thanks Sena Methodist. Leading Medicine. Recognized by U.S.News &

[PyMOL] Error in Fetch command

2011-05-13 Thread Rajagopalan, Senapathy
Hi, Everytime I try to fetch a pdb file from either the pdb or the pdbe server, I get an error saying unable to fetch. I am running the 1.41 version on mac osx. An example of the error is shown below: -- PyMOL>fetch 1MNM Error-fetch: unable to load '1MNM'. - However, the same c

[PyMOL] Simultaneous fading in and out of different representations

2011-05-04 Thread Rajagopalan, Senapathy
Hi Everyone, I am making a movie and want to show the transition between a cartoon and a ribbon representation smoothly. So I tried inserting a simple python script like: Methodist. Leading Medicine. Recognized by U.S.News & World Report as one of America's "Best Hospitals" in 13 specialties.

[PyMOL] Simultaneous fading in and out of different representations

2011-05-04 Thread Rajagopalan, Senapathy
Hi Everyone, I am making a movie and want to show the transition between a cartoon and a ribbon representation smoothly (fading out cartoon and fading in ribbon) . So I tried writing a simple python script like: --- for i in range(40,60): cmd.mdo (i, "set cartoon_transparency,%f" %( 1-(60-i)/