Re: AMBER: cutting the box after "solvatebox"

From: Carlos Simmerling <>
Date: Tue, 08 Aug 2006 08:43:47 -0400

you can modify the box dimensions directly in the coordinate file.
do you just want to change the box edge or actually remove some
of the water too?

Vlad Cojocaru wrote:

>Dear Amber users,
>I created a box around a solute (loaded as pdb) using "solvatebox sol
>TIP3PBOX {0 20 0}". However, I need to cut out from this box about 5A
>from each side of the x and y directions and about 10A from 1 side of
>the z direction. Is there any tool in Amber that can do that?

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Received on Wed Aug 09 2006 - 06:07:12 PDT
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