[Chimera-users] Problems detecting a left-handed helix

Elaine Meng meng at cgl.ucsf.edu
Thu Jun 11 10:09:24 PDT 2015


Also, cardinal-spline ribbons look somewhat better than the  default B-spline ribbons for left-handed helices.  You may still have to assign the residues as helix manually or via PDB-file HELIX lines as described previously, but after that, you could display ribbons and then try the cardinal spline:

ribspline cardinal

… or with smoothed, less ripply beta-strands:
ribsp card smooth strand

… or to go back to default B-spline:
ribsp b

<http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/ribspline.html>

Elaine

> On Jun 11, 2015, at 9:38 AM, Elaine Meng <meng at cgl.ucsf.edu> wrote:
> 
> Just a clarification of my previous reply, which included an incomplete sentence:
> 
>> On Jun 10, 2015, at 4:46 PM, Elaine Meng <meng at cgl.ucsf.edu> wrote:
>> 
>> However, I have noticed that Chimera ribbons are poorly rendered for left-handed helices, for example 1HXX residues 142-147. It just looks wrong, but the 
> 
> The sentence should have ended with something like:
> 
> … cylinder representations from Axes/Planes/Centroids or PipesAndPlanks look OK for left-handed helices.
> 
> (which was noted later in the same reply).  Sorry about that,
> Elaine




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