Among other things, Shurakai wrote:

> and a side-view of it.

If I'm not mistaken, those ellipsoids are a representation of the confidence 
region for the position of the nuclei. Could you replace them with simple 
spheres (proportional to Van der Waals radii, for example)? Or maybe make 
all spheres and cylinders (bonds) the same size?

-- 
light_source{9+9*x,1}camera{orthographic look_at(1-y)/4angle 30location
9/4-z*4}light_source{-9*z,1}union{box{.9-z.1+x clipped_by{plane{2+y-4*x
0}}}box{z-y-.1.1+z}box{-.1.1+x}box{.1z-.1}pigment{rgb<.8.2,1>}}//Jellby

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