Re: [AMBER] A problem about periodic box dimensions happens to Tutorial 1.7

From: David A Case <>
Date: Wed, 8 Sep 2021 07:49:53 -0400

On Wed, Sep 08, 2021, wangwei1669 wrote:

>For both situation the density and volume in the output file are maintaing
>stable during the simulation. And they do not change a lot near where it
>crashes for situation 1. However, the values are also strange since the
>system in fact is expanding shown in VMD. But the water molecules only
>expand along x- and y- direction. The final structure is like that two
>"plates" of water clamp the lipid cube.

Did you image the trajectory before visualizing it?


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Received on Wed Sep 08 2021 - 05:00:03 PDT
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