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Converts the output of dssp to HELIX and SHEET lines suitable for a PDB file reader.

 

dssp2pdb

Download the latest version (0.4)

What is dssp2pdb?

dssp2pdb converts output from dssp to HELIX and SHEET lines suitable for a PDB file reader. dssp2pdb can insert its output into a PDB file if desired. The dssp2pdb home page is http://dssp2pdb.bravais.net/. The author is James Stroud.

Setup

  1. Download the archive to your Deskop with your browser.
  2. Go to a terminal program and change to your Desktop.
    cd ~/Desktop
  3. Untar the archive from the command line:
     tar xvf dssp2pdb.tar
  4. Copy the script to a location in your path (e.g. /usr/bin):
    sudo cp dssp2dpb /usr/bin/dssp2pdb
  5. Make the script executable:
    sudo chmod a+x /usr/bin/dssp2pdb
  6. Start a new shell and use the program normally. Note that brackets ("[" and "]") in the help output, copied below, indicate optional arguments and are not included. For example:
     /usr/bin/dssp2pdb -5 mydsspfile.dssp mypdbfile.pdb > new.pdb

If you have trouble with the setup, you may need to consult a unix guru or your local system administrator.

Help Output

************************************************************************
** dssp2pdb version 0.04 (c) James Stroud, 2002, 2012
** provided under the gnu public license
** contact: http://www.jamesstroud.com/contact-info
************************************************************************
** Converts dssp file to HELIX/SHEET type lines for PDB files
** dssp2pdb will insert HELIX/SHEET lines above ATOM lines if
** "pdbfile.pdb "is provided
** When the "-3" flag is set, 3(10) helices will result in HELIX lines
** When the "-5" flag is set, pi helices will result in HELIX lines
************************************************************************
** Usage: dssp2pdb [-35] dsspfile.dssp [pdbfile.pdb] > new_pdbfile.pdb
************************************************************************