Re: [AMBER] Long syntax error on complex molecule

From: Thomas Cheatham <>
Date: Sat, 18 Jan 2020 04:11:19 +0000

Thanks for your e-mail. Our customer support team is having trouble parsing your request and we are sorry for the error.

However, without knowing what the "long syntax error" on the "complex molecule" is, we have little guidance.

Isolate the problem by trying the protein and ligand separately. If you need further guidance you need to send much more detailed information as we cannot see your monitor or outputs from here... We need to know the exact commands / usage.

Thanks for inquiry! The AMBER team...
From: Manisha Yadav <>
Sent: Friday, January 17, 2020 9:00:20 PM
Subject: [AMBER] Long syntax error on complex molecule


While running pdb4amber the error I am getting is long syntax error.
I wanted to simulate the lipopeptide docked target protein.
The residue count for target protein is 389 and drug itself is a peptide of
7 amino acid with a lipid side chain.

Kindly suggest how to resolve this issue.
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Received on Fri Jan 17 2020 - 20:30:02 PST
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