12/09/03

M. Serkan Apaydin

note: absolutely no warranty!

Routines to parse pdb file, to generate relative coordinates of the atoms
along the secondary structure elements.


usage: 

1) ./parsePDBFile.pl 1ROP.pdb > 1ROP.parsedPDB

2) manually create 1ROP.parsedDSSP in the same format as given in the example 
in the SRS--vectorBased code (just need AA sequence and secondary structure 
info., I picked them up from the PDB web site)

3) make 

4) ./sidechain . 1ROP

this creates the "dictionary" files that hold the relative coordinates
of the coordinates with respect to the backbone.