Secondary Structure Information

Secondary structure assignments are read with the -secstr option. The program DSSP can be used to determine secondary structure from an input PDB file. The DSSP output can be converted to DireX secondary structure format with the script dssp2dx, which comes with DireX. The format that DireX uses looks as follows:

1 3 A A
2 4 A F B
3 5 A T
4 6 A V H
5 7 A D H
6 8 A Q H
7 9 A M H
810 A R H
911 A S H

Col 1: number of entry
Col 2: Residue ID
Col 3: Chain ID
Col 4: Single-Letter amino acid code
Col 5: Secondary Structure code (same as used in DSSP)