Definition of secondary structure of proteins given a set of 3D coordinates W.Kabsch, C. Sander Kabsch,W. and Sander,C. (1983) Biopolymers 22, 2577-2637. protein:2d structure dssp dssp seqlab dssp perl "dssp" 0 pdbfile PDB File perl ($pdbid)? " -- " : " $value" 10 You must enter either the PDB data or the PDB id perl ! ($pdbid || $pdbfile) pdbfile perl 1 pdbid or you can instead enter a PDB id. perl (($value =~ tr/A-Z/a-z/) || $value)? "pdbloc $value | xargs cat | " : "" -10 output Output parameters surface Disables the calculation of accessible surface (-na) perl ($value)? " -na" : "" 0 1 classic Classic (pre-July 1995) format (-c) perl ($value)? " -c" : "" 0 1 outfile *.out dssp_outfile perl 1