Subject: Re: [modeller_usage] automodel vs loopmodel
From: Modeller Caretaker <>
Date: Tue, 11 Nov 2008 20:34:18 -0800
Mauricio Carrillo Tripp wrote:
> When I run the automodel or the loopmodel classes, either way I get a
> target.B99990001.pdb for the
> structure of the final model. From the documentation, I understand that
> in the case of the loopmodel, an
> extra pdb file will be produced with refined loops.
> My question is:
> Should the models in files target.B99990001.pdb be the same whether I
> use automodel or loopmodel?
> (provided I'm using the same optimizations and all, I'm just changing
> the class name in the python script)
Yes. loopmodel is a subclass of automodel; by default it does the same
thing as automodel, and then does additional loop refinement.
Ben Webb, Modeller Caretaker
Modeller mail list: http://salilab.org/mailman/listinfo/modeller_usage