Hi Jorge,
I have written a script that will draw lines between arbitrary pairs of atoms
using CGO cylinders. The script is called "draw_links.py" and can be found on
my script page:
http://pldserver1.biochem.queensu.ca/~rlc/work/pymol/
Besides listing the pairs of atoms to connect you can con
Hi Jorge and Blaine
Another was to do this is to take a measurement between the residues and then
use the command, “set dash_gap, 0”
This will also allow you to control the thickness of the lines using the “set
dash_radius” command
Cheers,
Ali
Ali Kusay | BPharm (Hons) | PhD Candidate & Pharm
Hi Jorge,
You can use the "bond" command if the structures to be linked are in the same
molecular object.
You may have to use the "create" command with both objects in a selection to
merge two objects into one.
bond [atom1, atom2 [,order]]
You can control the bond thickness via the stick_radi
Hi all.
I have a list of pairs of residues. I want to draw lines between the
residues in each pair. The lines can have different colors. So in the end I
would like to achieve a figure like this one:
[image: 2019-10-15.png]
What commands can I use to get this done in PyMOL?
Thanks
_
Hi Vaheh,
Try this:
set dot_radius, 0.1
set dot_as_spheres
Cheers,
Thomas
> On Oct 15, 2019, at 9:53 PM, Oganesyan, Vaheh
> wrote:
>
> Hello PyMOLers,
>
> Figure that contains dots getting unwanted metamorphosis after ray tracing
> (figures before ray tracing and after are attached). A
Hi Jared and Vaheh -
We've implemented two modes and pushed the change to the github repository.
set internal_gui_name_color_mode,
set internal_gui_name_color_mode, 2
Mode 1 is color by first carbon color. We think this is the most relevant use
case and what the user typically would expect. Th
