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The DSSP program was designed by Wolfgang Kabsch and Chris Sander to standardize secondary structure assignment. The DSSP database is a database of secondary structure assignments (and much more) for all of the entries in the Protein Data Bank (PDB).
To create a dssp file for your protein, type the following
(path on the SGI is: /srv/local/r4k/ and on the linux:
/srv/local/linux/bin/)
dssp [-na] pdb_file dssp_file
the -na flag disables the calculation of accessible surface.
The instruction manual for the DSSP program is here.
A copy of the Kabsch & Sander paper is amongst the
manuals in the Core.
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Center for Structural Biology (www.csb.yale.edu), Yale University (www.yale.edu) Contact: webadmin(at)mail^csb^yale^edu Last Modified: Friday, 05-Oct-2001 11:45:45 EDT by S.Kunchaparty |