[AMBER-Developers] TIP5P with masses on the virtual sites?

From: David Cerutti <dscerutti.gmail.com>
Date: Fri, 16 Jul 2021 04:19:44 -0400

>From ${AMBERHOME}/test/tip5p/prmtop:

*%FLAG MASS*
*%FORMAT(5E16.8)*
* 1.60000000E+01 1.00800000E+00 1.00800000E+00 3.00000000E+00
3.00000000E+00*

That's for TIP5P water atoms *O H1 H2 EP1 EP2*. I cannot understand
this. Not at all. At what point were virtual sites ever assigned any
mass--they would then be atoms, and the diffusion coefficient would be way
off (not to mention the system density).

Dave
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Received on Fri Jul 16 2021 - 01:30:02 PDT
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