The file (or possibly a preliminary version) was edited into two parts: the protein (pro.pdb) and the inhibitor (dana.pdb). (both of these had all hydrogens removed).
Spheres were created colored by atom type:
pdb-atom-sph dana.pdb n9.sph
Cylinders were created for the bonds:
pdb-bond dana.pdb n9.cyl
The solid surface colored by residue was created from a dot surface.
First spheres are created colored by residue with backbone atoms
set to cyan (color=6), then the dot surface, then a geodesic dome
of level 1 (only 0 or 1 allowed) collapsed onto these dots:
pdb-res-sph -b 6 pro.pdb res.sph
sph-ms res.sph res.dots
ms-tri -1 res.dots n9.tri
The *.model file was generated to center on the inhibitor:
pdb-model dana.pdb n9.model
( edited the *.model file to change the menu name )
Create the *.atoms file:
ls n9.sph > n9.atoms
Create the *.bonds file:
ls n9.cyl > n9.bonds
Create the *.polys file:
ls n9.tri > n9.polys
To display the ball&stick inhibitor and rough solid surface:
ribbons -n n9
Could of course add ribbons as in other examples, or display
the dot surface by:
ls res.dots > n9.ndots