On Tue, Aug 13, 2013, Aylin Sahin wrote:
> I want to model the folding of the C-terminus of a protein. The
> protein consists of 120 residues. For the last 11 residues, there is
> no structure available.
Generally, Amber is not a great way to approach such model building tasks.
Treating this as a homology modeling problem (with appropriate software tools)
is likely to yield a better starting structure. Once you have an initial
model, you can use MD in Amber to explore fluctuations about this starting
structure.
...dac
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Received on Wed Aug 14 2013 - 05:00:03 PDT
