docking of cyclic peptide

[LINGHAO ZHONG <lozg %! at !% mail.rochester.edu>]

Hi, all:
 I am trying to find the optimal binding conformation for a small peptide
 docking to a protein. Unfortunately the pepetide is a cyclic one, which
 causes problem in Autodock. The program kept giving me core dump error,
 which I assumed to be caused by the cyclic conformation of the peptide,
 and I wanted it to be flexible! I have tried a linear peptide to the same
 protein, it worked well.
 Has anyone ever run into the same situation? Is there any novel protocol
 to deal with the docking of cyclic peptide? Any input will be appreciated!
 Linghao Zhong
 ___________________________
 Graduate Student
 Department of Chemistry
 University of Rochester
 Rochester, NY 14627-0216
 Tel. (716)275-2980