Jeff Woodford wrote:
Hi all,
Forgive me if this is a stupid question, but:
I am attempting to simulate the interaction between a peptide and a DNA
strand using the OPLS/AA force field. However the parameters for the
DNA bases don’t appear to be included. Where might I find these
parameters suitable for adapting to GROMACS?
Any particular motivation for using OPLS-AA? The AMBER force fields include
both DNA and protein.
-Justin
Thanks in advance,
-Jeff
Jeffrey N. Woodford
Associate Professor of Chemistry
Eastern Oregon University
Tel: 541-962-3321
Fax: 541-962-3873
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--
========================================
Justin A. Lemkul
Graduate Research Assistant
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin
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