Re: [modeller_usage] Optimization or Refinement of Homology Model

22 Feb 2005


      David Piper wrote:
> 1)  What level of refinement or MD_LEVEL is used as a
>     default?
refine_1. See bin/__defs.top and bin/__refine.top.
> 2)  After modelling, if there are "bumps" or poorly defined bond lengths 
> or angles (based on ProCheck output), what is the preferred way of 
> optimizing them?
You can use more rigorous refinement, or build more models and take the 
best ones.
Ben Webb, Modeller Caretaker
-- 
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