[AMBER] secstruct

From: Beale, John <jbeale.stlcop.edu>
Date: Thu, 5 Mar 2009 07:54:20 -0600

I am using "secstruct" in ptraj to compute the secondary structure of a
small protein. The summary file out of secstruct shows that there is an
alpha helical region of the secondary structure that overlaps with a
3-10 helix. I get two structural designations for the same region of the
protein. How can this be explained? I expected to see a discrete alpha


John M. Beale, Ph,D,

Associate Professor of Medicinal Chemistry

St. Louis College of Pharmacy

4588 Parkview Place

St. Louis, Missouri 63110


Cell: (314)-315-0409

FAX (314) 446-8460




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Received on Fri Mar 06 2009 - 01:21:40 PST
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