Re: [modeller_usage] stuck even before begining - how to create the .ali file

[Modeller Caretaker <modeller-care@ucsf.edu>]

Ariel Bensimon wrote:
> I would like to use MODELLER to structurally align a protein domain with 
> a known PDB. But I am stuck. I could even create the basic .ali file. 
> Trying using the manual. Couldn't find the basic start of things

There is no requirement to make your initial alignment in Modeller - 
many people use different programs to do this. But if you did want to 
use Modeller, the basic tutorial at 
http://salilab.org/modeller/tutorial/basic.html takes you through a 
simple case.

	Ben Webb, Modeller Caretaker
--
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