[AMBER] strange ion location

From: Albert <mailmd2011.gmail.com>
Date: Thu, 21 Jun 2012 15:22:07 +0200

hello:

   I am using the following command in tleap to add ions for my system
(0.15M Nacl + 12Na+ for neutrali system)

*addions2 mol Na+ 40 Cl- 28*

when the system is done, I visualized it in vmd and I found that there
are lots of ions not diffuse throughout the whole solvent but in the
corner of boundary box.... I am just curious is it normal?

here is a figure for it:

https://dl.dropbox.com/u/56271062/ion.jpg

thank you very much
best
Albert



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Received on Thu Jun 21 2012 - 06:30:02 PDT
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