AMBER Archive (2006)

Subject: AMBER: nmode: number of atoms limitation

From: AYTUG TUNCEL (ATUNCEL_at_ku.edu.tr)
Date: Mon Aug 28 2006 - 18:15:04 CDT

Dear Amber users,

I am trying to do nmode calculation of mm_pbsa method using amber8. My protein is dimeric composed of totally 13776 atoms (both chains have nearly equal length). I am wondering about the maximum number of atoms that nmode can be applied. As far as I found in the archive it is about 8000 atoms. If this is the case how can I apply the method to my system, is there any trick about changing a parameter? thanks in advance...

Aytug

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