Pymol/Example
From ScientificComputing
As an example for using PyMOL, we will render a cartoon image of a protein (1bl8). If you would like to repeat the example, then please start an interactive PyMOL session on a login node and type the following sequence of commands in PyMOL
fetch 1bl8 show cartoon hide lines, all set depth_cue, 0 set spec_reflect, 0 set bg_rgb=[1,1,1] set orthoscopic, on set cartoon_fancy_helices, 1 set cartoon_smooth_loops, 1 set cartoon_highlight_color, 1 set ray_shadows, 0 set ray_texture, 1 ray
This is, what the result should then look like: