[Dock-fans] How to Dock peptide
jir322 at gmail.com
Thu Feb 23 08:58:47 PST 2017
Possible, yes. Recommended, no. DOCK 3.7 uses the rigid fragment +
decorations paradigm to sample conformations. A peptide, even 3 residues
long, has too many internal degrees of freedom, and the "rigid fragment"
will likely be an aromatic side chain, if present, which may be peripheral.
For a case like this, I would recommend Rosetta.
On Wed, Feb 22, 2017 at 11:36 PM, lina zhao <xinniwo at gmail.com> wrote:
> I have a peptide, 7 residues Long.
> Whether is it possible to use dock3.6 to do the dock, mainly how to
> prepare the database.
> Thanks, Liv
> Dock-fans mailing list
> Dock-fans at docking.org
-------------- next part --------------
An HTML attachment was scrubbed...
More information about the Dock-fans