Example of thick bond model with selected electron density using O

• Load the entire molecule

sam_at_in prot.pdb
mol prot
obj prot
z ; end

• Make the carbons white in the model

paint_prop atom_name = c* white
z ; end

• Read the small cpk radii file:

read radii.o

• Draw the cpk atoms:

sketch_cpk prot

• Set the bond thickness and complexity:

sketch_set

Sketch> Setup for what type? [stick]:
Sketch> Solid, line or smooth mode? [smooth]:
Sketch> Radius? [ 0.2]:
Sketch> Number of edges [ 4]: 10

• Draw the bond cylinders:

sketch_stick prot

• Read in a pdb file containing the residue(s) you want the map to be around:

sam_at_in res.pdb
mol res
obj res
z ; end

• Draw map around residue(s):

map_cover res 1
map_active_centre
map_file 2fofc.omap
map_obj map
map_par 10 10 10 1. lime_green 0.5 0.1 1
map_ac
map_dr
on_off

• Turn off the residue display by clicking it in the object list.
• Size the window and snapshot your image.

Last Modified: Monday, 30-Sep-1996 12:04:15 EDT