[AMBER] Adjust system in certain axis

From: mohamed marzouk <mohamedmarzoukphysics.gmail.com>
Date: Fri, 24 Dec 2021 00:31:01 +0000

Hello everyone,
After MD simulation, I obtained the system (Protein + DNA ) inside the box but not on the right direction to continue next step.
I want DNA along Z axis so the protein can unbind in X axis which already the wide length of the box prepared.
I used

  * autoimage : the system not along z axis
  * autoimage + align protein and DNA : the system adjusted along the z axis but the water box shifted than box dimensions

any suggestions

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Received on Thu Dec 23 2021 - 17:00:03 PST
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