[Chimera-users] Chimera: doubt on axes measurement

Eric Pettersen pett at cgl.ucsf.edu
Thu Aug 7 17:37:56 PDT 2008

Oops.  The measurement isn't honoring the relative motion of the  
models -- the values you see are for the original coordinates of the  
models.  I've just committed a fix so that it does consider the  
relative positioning of the models when computing the angle/distance  
values.  It will be in tonight's build and you should be able to get  
it tomorrow (www.cgl.ucsf.edu/chimera -- follow the "Daily Builds"  


                         Eric Pettersen
                         UCSF Computer Graphics Lab

On Aug 7, 2008, at 2:49 PM, Giovanni Cardone wrote:

> Hi everybody,
> I have a doubt about my proper using the tool Axes for measuring  
> angle between helices.
> After aligning two model and generating the axes corresponding to  
> the helices of interest, I select them in the 'Structure  
> Measurements' dialog windows.
> As you can see from a snapshot, they look properly selected. They  
> are almost overlapping, but in the Reply Log I get the following info:
> col_best_001.pdb helix 10/col_best_005.pdb helix 2 crossing angle:  
> 36.9 degrees, distance: 15.3 angstroms
> Beside the value of the angle seeming to me too high, shouldn't the  
> distance between the helices be within few angs (at least according  
> to how I interpret the documentation)?
> Probably I am missing something.
> Thanks in advance,
> Giovanni Cardone
> <Picture 9.png>
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