Displaying occulded surface dots or extended rays in PyMOL

The file raydisp.lst (output by OS) contains the coordinates, lengths, and normal vectors for the rays of the residue(s) you specified in the os.fil file (if you entered a "y" on the last line)..


Copy the os_v76/bin/Disp_dots.py and Disp_rays.py files to your working directory (where the raydisp.lst file is located).

Launch PyMOL in your working directory and in the command window type,

select os_res, resid [whatever_residues_listed_in_os.fil]

Display the os_res object as spheres.

Then type the following in the command window,

run Display_dots.py and follow the prompt.
or
run Display_rays.py and follow the prompt.