If you have the arrow defined by GLY CA coordinates which is created from DynDom
then you can use the script on the following link to define an axis in PyMOL and
change the color or thickness as you want. Define the position of the axis
using two of the GLY CA coordinates found along the arrow line from DynDom.
http://pymolwiki.org/index.php/Symmetry_Axis
The script is the copyright of Matthew O'Meara and Xavier Ambroggio 2007.
Quoting peter hudson peter.hudson.pe...@gmail.com:
Hi all
Sorry for partially off topic query
I am working with a multidomain protein. which is present in closed and open
conforamtion because of the motion in the domains of the protein. I would
like to describe the roation angle of the different domains of the protein
and the direction of the domain motion of my structure as a pictorial
representation. I know the rotation angles and the direction of motion. My
major problem is the represtion in picture with arrows and shaft with the
cartoon diagram. I donot know which program can do this. could it be
possible with any model represtation tools. I know that Dyndom can do
everything, but here again i am not aware with the represetion of the domain
motion with arrows and shaft. i would appreciate the suggestions.
Thanks in advance
Peter
--
Michael Oldham
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