Dear All
I run into something when using the Mutagenesis Wizard.
Given a peptide as this: ALA-HIS-TRP, created by -A, -H,
-T. After that I issue h_add to fill up valencies at the terminal
carbonyl and amine sites.
Say I mutate now the terminal TRP to something else (e.g. GLU), i run
into a pro
Hi Martin,
This took a bit of work to figure out, but the following code solves
your problem (above). It will download a PDB (I coded "1RSY") and
select a residue (I coded 236). I will then mutate that residue to
all possible residues given what the rotamer library knows about, and
write that ou
CJ,
You were close, try:
load nmr1.pdb,mov
load nmr2.pdb,mov,33
intra_fit mov
mplay
Cheers,
-- Jason
On Wed, Sep 15, 2010 at 10:03 PM, 郝思捷 wrote:
> Dear All,
>
> I have two NMR.pdb files that describe the same molecule. They are 32 states
> each. It's possible to separately load either of the
Hi all,
Is there a method to set different ray_trace_mode on different object in
pymol? For example : set ray_trace_mode=1 on structure while set
ray_trace_mode=0 on a map?
Thank you very much!
Yamei Yu
--
Start uncoveri
Hi Yamei,
I don't think that's possible. "ray_trace_mode" is a global setting.
If possible, you can try overlaying two images using different
settings. To do this, render your layers and use a compositing
program like "composite" from ImageMagick
(http://www.imagemagick.org/script/composite.php)
Hi,
Is there any way to display an electrostatic isosurface (calculated by
apbs) as either a nice-looking mesh or as a projection plane (as done by
the SGI version of Grasp)? (Or some other format that is reasonably
clear in 2 dimensions.)
Thanks,
David
-
David A.
David,
Run APBS through Michael Lerner's APBS plugin. Then, for the map
object "pymol-generated" click, A > Mesh and choose your isolevel; or
choose A > Slice.
Cheers,
-- Jason
On Thu, Sep 16, 2010 at 5:07 PM, David A. Horita wrote:
> Hi,
> Is there any way to display an electrostatic isosur
