AMBER Archive (2007)

Subject: AMBER: adding water molecules in lipid bilayer model

From: Vijay Manickam Achari (vjrajamany_at_yahoo.com)
Date: Sun Jul 08 2007 - 22:22:46 CDT

Dear amber users,

I have built bilayer system. Now I want to solvate the
bilayers with water. I want to put a layer of water
molecules, say 250 water molecules on top and bottom
of the bilayer.

How am I suppose to put the water molecules?
Is there any command available in Amber so that I can
put only on top and bottom of my bilayer.

If I use solvatebox, it puts all around my bilayer
system which I dont want like that.

Can anyone help me??

Thank you
Vijay Achari

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