Dear Amber developers and users,
When I build an poly-peptide including non-standard amino acid (AA),
Annomalous "TER" is sometime inserted between standard and
Non-standard one in PDB formatted file.
Here, I prepared the prepin file for the non-standard AA
By using ANTECHAMBER and make polypeptide by "sequence" command of LEaP.
After loading the residue-related files, i.e. PREPIN and MOL2 files,
I set head and tail for these residues.
Why does such an anomalous TER appear?
In other word, how do I make LEaP recognize a RESIDUE is isolated,
Where thus Ter must be inserted.
I am really glad if you give advices.
Yours sincerely,
Ikuo KURISAKI
_______________________________________________
AMBER mailing list
AMBER.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber
Received on Tue Mar 05 2013 - 02:00:03 PST
