[Chimera-users] Chimera-Modeller interface, template selection

Julia Shifman jshifman at mail.huji.ac.il
Thu Nov 17 02:44:00 PST 2016


Dear Elaine,

It is me and not Dina who is trying to use Chimera Modeller interface and I am having several problems. I tried to do what you suggested and it does not work. The error message is “could not determine structure to load for selected template” and the modeller does not run the calculation.  I am sending you my pdb file and the sequence alignment file. Could you look at it and tell me what is wrong?  
Also, I was having trouble with two chains being in the file. I would like to model one chain, but in the presence of the second chain. I do not 100% understand what should be in the comments in the .ali file and if I inserted them correctly:

Here:
structureX:5C7Jcut: 520 :A: 75 :C:::: 
sequence:llama: 520 :A: 75 :C::::

I would be very grateful for you if you could solve me these problems.

Julia


Dr. Julia Shifman
Department of Biological Chemistry
Hebrew University of Jerusalem
Phone:   972-2-658-4078

WEB:      www.bio.huji.ac.il/shifman


> On Nov 16, 2016, at 10:25 PM, Elaine Meng <meng at cgl.ucsf.edu> wrote:
> 
> 

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