The tube radius is computed from the distances of CA atoms from the center line of the tube. So helices that fit well on the surface of a tube will have the "expected" radius while those that do not fit well typically look fatter (because some CA atoms stray far from the fitted tube surface). We will be adding an option to use a fixed radius rather than the variable one in the next few weeks.
Conrad
On 4/3/2017 11:07 AM, Tom Goddard wrote:
Hi Martin,
That is odd, I didn’t know the helix cylinder diameters varied in ChimeraX. I don’t know the algorithm or how to change the diameter. Maybe Conrad (who wrote the code) or Elaine will know. There is a chimerax-users@cgl.ucsf.edu mailto:chimerax-users@cgl.ucsf.edu mailing list that you can ask such questions on.
Tom
On Apr 3, 2017, at 10:40 AM, Martin Moncrieffe wrote:
Hi Tom,
When displaying helices as tubes, can one set the radius of the tubes? I’ve noticed that depending on the structure, the tube diameter is scaled scaled differently even though the docs state that w/h/x-secton do not apply in tube mode. I’m sure you guys have some fancy algorithm to do so.
Anyway, I really like what you’re all doing so far.
Best.
__martin
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