[gmx-users] charge distribution
jalemkul at vt.edu
Sun Dec 28 21:01:29 CET 2014
On 12/27/14 3:54 PM, elham tazikeh wrote:
> Dear gromacs users
> i d like to know about charge distribution in .itp file that how can fix
> the charge of atoms
> for instance, i simulated Aspirin in Human serum albumin, and i want to
> know about their charges
> in an article charge distribution was as below, but in my .itp file
> (aquired by PRODRG server) i had 11 atoms instead of 13 atoms
Neither is enough atoms for aspirin, which should have 17 atoms in its
united-atom representation (explicit H on aromatic C). Aspirin would have 13
atoms if the aromatic H are not explicit (wrong for Gromos96).
Justin A. Lemkul, Ph.D.
Ruth L. Kirschstein NRSA Postdoctoral Fellow
Department of Pharmaceutical Sciences
School of Pharmacy
Health Sciences Facility II, Room 629
University of Maryland, Baltimore
20 Penn St.
Baltimore, MD 21201
jalemkul at outerbanks.umaryland.edu | (410) 706-7441
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