Hello all!!
I am required to mutate one of the atom of a protein (pdb file) with some
groups of atoms. Pymol features us to mutate a residu with another amino
acid, but I cannot mutate an atom with some other group that are not amino
acids. So, how can I do it. Please help.
Also I want to know th
Stuart,
For what's it's worth, I'm not able to reproduce the problem:
Aside from automatic suppression of output when using the Python API,
I'm getting the exact same behavior with
# test1.pml
cmd.pseudoatom("temp",pos=[0,0,0],name="A")
cmd.pseudoatom("temp",pos=[0,0,5],name="B")
cmd.bond("te
Craig,
In the OpenGL viewer, dashes are always drawn using line primitives, so
dash_radius has no effect until you issue the "ray" command.
Note that dash_width is generally preferable to dash_radius since it
controls both the OpenGL and ray-traced renditions (so long as
dash_radius is zero).
Ch
Hello,
I trying to make thicker and longer dashes for indicating distances
for a figure I'm making. I can make the the dashes longer with
dash_length. But, the dashes look very flat. I tried making the
dashes look rounder using dash_radius. When I change the value I
don't see a change
Vivek,
If there are multiple attached atoms, then there may be multiple
dihedrals present. There is a visual indicator which shows what angle
is being measured -- do those indicator match the displayed angle?
Cheers,
Warren
> -Original Message-
> From: Vivek Ranjan [mailto:vran...@gmai
Hello,
When I "cntrl+right-click" on a bond, it is supposed to give the
dihedral angle. However, it gives something else. E.g. the angle in
question has actual dihedral angle of 180 degrees. However, it shows
-56.9 degrees.
Please let me know how this works ?
--
Thank you and Regards,
Vivek Ra
Stuart,
I tried this in a script and at the command line and both worked
flawlessly. Without access to your script, this could be hard to
debug--maybe it's a typo?
Here was my test script:
cmd.pseudoatom("temp", pos=[0,0,0], name="a")
cmd.pseudoatom("temp", pos=[0,0,5], name="b")
cmd.bond("te
