From: Jeffrey Potoff (jpotoffx_at_gmail.com)
Date: Fri Aug 24 2012 - 09:37:49 CDT
On 8/24/2012 9:08 AM, Christopher Rowley wrote:
> In general, other codes make water molecules rigid by imposing a SHAKE
> constraint on the distance between the two hydrogens (AMBER and CHARMM
> for sure, I assume the others do too). The SHAKE algorithm is much
> easier to apply to a distance than an angle. A three-atom molecule
> where the distances between all atoms is constant is rigid, so this is
> a much simpler way of achieving a truly rigid molecule.
> We are using the Jorgensen hydrogen sulphide model, analogous to to
> TIP3P water ( J. Phys. Chem.,1986,90(23), pp 6379--6388).
FYI, there are better models for H2S in the literature:
-- ================================================================= Jeffrey J. Potoff jpotoff_at_wayne.edu Associate Professor and Director of Early Engineering Programs Department of Chemical Engineering and Materials Science Wayne State University 5050 Anthony Wayne Dr Detroit, MI 48202 TEL: (313) 577-9357 http://potoff1.eng.wayne.edu =================================================================
This archive was generated by hypermail 2.1.6 : Tue Dec 31 2013 - 23:22:25 CST