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Re: [modeller_usage] Reg modeller

On 02/05/2014 10:57 AM, Manjula Mummadisetti wrote:

I would like to understand the link below. I am not quite sure what each
of those numbers mean, although the link does mention, can somebody
clearly explain what those numbers are in restraints panel?

http://salilab.org/modeller/8v1/manual/node157.html#SECTION:atomid


That's a very old version of the docs. Here's the latest:
http://salilab.org/modeller/9.12/manual/node480.html
All the numbers are explained at that link. However, we don't generally recommend you add restraints by hand-writing raw restraints files; you can do it from Python instead. There is an example at http://salilab.org/modeller/9.12/manual/node27.html 


Also, I would like to restrain N-N distance rather than C-alpha C-alpha.
How do I make those changes?


It's exactly the same - the atom type doesn't matter.

	Ben Webb, Modeller Caretaker
--
modeller-care@ucsf.edu             http://www.salilab.org/modeller/
Modeller mail list: https://salilab.org/mailman/listinfo/modeller_usage