[gmx-users] how to introduce vacuum??

[Vivek Raut]

hi,

1: i have one water box with a protein & some other molecules. the height ( 
'c' in the dimensions of the system) of the box is 60 angstroms. Now I have 
to introduce vacuum in a section of the box ( say from height of 45 AU to 
55 AU)  how do i do that??

2: how to change permittivity in a part of system??

since by default we fill the box with water, the permittivity of the system 
is 80. i want to change it, how to do that??



*****************************************************************************************************************************************
Vivek Raut.
Graduate Research Assistant,
501 Rhodes Engineering Research Center
Clemson University, Clemson, SC 29634
Tel: 864-650-1431
Email: vraut at clemson.edu

*****************************************************************************************************************************************