AMBER: Average PDB - Unusual Bonds

From: Seth Lilavivat <>
Date: Fri, 04 May 2007 10:12:25 -0400

Dear Amber Users,

I when I use ptraj to create an average stucture of several MD or annealing runs
with a NA structure, the structure has some unusual bond connectivity. I can
load the structure into leap and it looks fine, but in VMD and Rasmol it looks
the same. Has anyone else experienced such behavior?

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Received on Sun May 06 2007 - 06:07:29 PDT
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