AMBER: no defined type for atom N atom

From: Wu Yingliang <>
Date: Fri, 19 Sep 2003 20:57:12 +0800

Dear Amber users,

I have a short peptide (about 30 residues) aminated in the C terminal. When I load it in xleap program, it tells me: there is no defined type for heavy atom N. In order to produce corresponding topology and coordinate file, I have to delete it, and atom OXT was then added.

Because this NH2 from aminated residues in the C terminal is important to interact with Receptor, another protein. Then how will I resolve such question for retaining NH2 during using SAVEAMBERPARM? Then I can use MD for my docked protein complex.

I am not a experienced user, and expect your help! Thanks a lot in advance!

Best Regards,

Wu Yingliang
College of Life Sciences
Wuhan University
Wuhan 430072

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Received on Fri Sep 19 2003 - 14:53:00 PDT
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