[AMBER] ANTECHAMBER error: Fatal Error! Weird atomic valence (5) for atom (ID: 7, Name: C5).

From: Pooja Kesari <pkesari88.gmail.com>
Date: Tue, 25 Aug 2020 14:03:01 +0530

I have a peptide (ESFLE) as substrate for a protein. I have converted this
file to a mol2 format file using chimera. Now when i am running
antechamber; it is showing an error message regarding open valency. The C5
atom belongs to the side chain of glutamic acid.
Please provide suggestions on how I can overcome this error.
Is there any other way to add charges to peptide?

Thanks & Regards,
Pooja Kesari
Post Doctoral Fellow
Department Of Biosciences and Bioengineering
Indian Institute of Technology Bombay
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Received on Tue Aug 25 2020 - 02:00:02 PDT
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