VMD-L Mailing List

From: Rabab Toubar (rtoubar_at_yahoo.com)
Date: Tue Sep 02 2008 - 13:54:47 CDT

Hi,
 
I am solvating a water molecule, and I always get the original water molecule outside the water box, and accordingly the water box dimensions are different than the input. Would the position of the initial molecule affect the rest of NAMD simulations? Or it is just a vmd visualization error ?
 
Thanks
Rabab