Re: [AMBER] Xleap - solvatebox - counterions

From: Bill Ross <ross.cgl.ucsf.edu>
Date: Fri, 30 Jan 2009 10:40:07 -0800 (PST)

> If I solvate (solvatebox test TIP3PBOX 10) my molecular system previously
> neutralized with Na+ counterions

By the way it is better to solvate then addions, because then each
ion replaces a single water.

Other than that, you have found an interesting case. The larger size of
K+ vs. Na+ might mean that K+ is placed further from the solute and this
in turn expands the box for subsequent solvation.

Bill

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Received on Sun Feb 01 2009 - 01:10:59 PST
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