[gmx-users] Regarding generating itp file.
jalemkul at vt.edu
Fri Dec 11 14:05:20 CET 2015
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On 12/11/15 8:02 AM, Raju Lunkad wrote:
> In calcium oxalate monohydrate the charges are,
> Type charge
> Ca 2
> C 0.992
> O(oxal..) -0.996
> O(water) -0.773
> H 0.3665
> calcium oxalate monohydrate having two type of bonding which are,
> Ox1 oxalate bounded with calcium only
> and Ox2, oxalate bounded with calcium and oxygen.So, Kindly help me for
> generating itp file for these type of interactions.
If you want bonds between those atom types (probably not necessary given the
strong electrostatic interaction between the carboxylate and Ca2+) you'll have
to do some sort of QM calculation to get the vibrational frequency and
subsequently the force constant.
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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