AMBER Archive (2003)

Subject: AMBER: Non-standard Residue

From: Ran Ye (ryejob_at_yahoo.com)
Date: Tue Jul 22 2003 - 14:34:06 CDT

Hi AMBER users:

I'm a newbie on AMBER and I'm trying to do some MD
calculations using AMBER. The problem is, I couldn't
get my 27 hydroxyproline residues in the protein
structure recognized by AMBER. So I figured probably I
had to use antechamber, but here is the result of
antechamber:
--------------------------------
cobre07 9% antechamber -fi pdb -fo gzmat -i
1CAG-am.pdb -o 1CAG-am.gau

 Unrecognized atomic name , exitBus error (core
dumped)

-----------------------------------
Could anybody give me some idea how to deal with HYP
residues in the protein? Appreciated!

Ran

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