[gmx-users] Secondary structure content

Smith, Micholas D. smithmd at ornl.gov
Sat Sep 9 15:31:04 CEST 2017

If i remember correctly the DSSP plot should be something like residue # on y-axis, and time on the x-axis, then it is normally a color plot of what secondary structure each residue is in at that time point. Secondary structure content (%) vs time sounds more like a single plot of the fraction of residues (%) of residues at each time point that are not in a 'coil' state. 

Hope that makes sense.
Micholas Dean Smith, PhD.
Post-doctoral Research Associate
University of Tennessee/Oak Ridge National Laboratory
Center for Molecular Biophysics

From: gromacs.org_gmx-users-bounces at maillist.sys.kth.se <gromacs.org_gmx-users-bounces at maillist.sys.kth.se> on behalf of Sundari <sundi6170 at gmail.com>
Sent: Saturday, September 09, 2017 5:48 AM
To: gromacs.org_gmx-users at maillist.sys.kth.se
Subject: [gmx-users] Secondary structure content

Dear all,
I am confused with 'dssp' output graph i.e "number of residues vs time". Is
it also called "secondary structure content(%) vs time" ?? Or it is
different term?

please, anyone help me to solve this confusion  or send me any link
contained proper definition of these two.

Thanks in advance
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