Hi and thanks for reading this.
I have googled for a way to achieve what I want and have gone through
the wiki, to no avail.
I would like to color in a different way the different helix types:
alpha, pi and 310. When you open, for instance, 1pyg into Jmol, you get
distinct colors for each type by
To wrap up and summarize, a new version of the script is available in
the wiki that circumvents the minor python trouble,
and this works well with 1.2r2 and I guess later Pymol versions, and
it works really well!
My favorite 'indian summer' gradients for now:
spectrumany count, paleyellow ye
Hi Ramiro,
PyMOL doesn't differentiate helices, so it cannot color them
differently. If you had the residue labels from some other program
you could read them in and then color by type.
Cheers,
-- Jason
On Wed, Apr 6, 2011 at 5:22 AM, Ramiro Téllez Sanz wrote:
> Hi and thanks for reading this
Hi Ramiro,
Like you, I would love to see secondary structure colored by helix type. Jmol
however does not show this as a default. Do you know what steps you took to get
Jmol to show secondary structure colored by helix type?
I can't seem to find that setting in any of the menu options.
style/
Jason (or someone else),
Is there way in pymol to look for the following angle in a structure φ=-49o and
ψ=-26o ? Which is the definition of a 310 helix. And yes we'd have to search
for a few degrees plus of minus of those angles. They should all appear in
tight turns and last for about 3 or 4
Hi Adam,
You could script this using the angle command with specific selections.
Cheers,
-- Jason
On Wed, Apr 6, 2011 at 11:49 AM, H. Adam Steinberg wrote:
> Jason (or someone else),
> Is there way in pymol to look for the following angle in a structure φ=-49o
> and ψ=-26o ? Which is the defin
Hi all,
So I tried compiling the 1.4b today and came across a couple of issues.
1) The layer3/Executive.c is attempting to include "ce_types.h" locally but
the header file is actually under 'modules/cealign/src'
2) With a quick hack, I was able to compile. However, when attempting to run
the bina
I found the ce_types.h problem happens with autotools, but not with setup.py
method.
-David
On Apr 6, 2011, at 5:59 PM, Paul Rigor wrote:
> Hi all,
>
> So I tried compiling the 1.4b today and came across a couple of issues.
> 1) The layer3/Executive.c is attempting to include "ce_types.h" loc
Hi David,
I actually ended up using the python distools instead. However, the viewer
flickers =\ Below is the log when starting up PyMol over X-windows from a
Mac OS X 10.6.x client. Anyone encounter similar issues?
Detected OpenGL version prior to 2.0. Shaders unavailable.
OpenGL graphics eng
