On 2/13/18 5:08 AM, Prasanna Dr wrote:
The force field combination used in GROMOS96 53A6 with extended Berger
lipids contains L-J interaction cross-terms between protein lipid atom
types? If so how abnormally high L-J interactions are tackled?
In my case, to prepare the topology of my system (which contains proteins
and DPPC), I followed KALP15 in DPPC tutorial (version Gromacs 5.0 and
above) of Justin A. Lemkul. Does this tutorial answers my first question?
Does I have employed force filed combination rules effectively?
Force field combination rules are only overridden when using a
[nonbond_params] directive. If you find something abnormal that needs to
be fixed, then you'd implement it there. Note that the tutorial is
instructive in demonstrating how to set up such a system, but it is not
the best possible force field model out there.
Justin A. Lemkul, Ph.D.
Virginia Tech Department of Biochemistry
303 Engel Hall
340 West Campus Dr.
Blacksburg, VA 24061
jalem...@vt.edu | (540) 231-3129
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