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Secondary structure input

In a file with secondary structure predictions, per-residue secondary structure should be given as a string of secondary structure types: H (helix), B (beta-strand), and C (coil). The secondary structure string should match the input PDB file. More specifically, the length of a secondary structure string should be exactly(!) the same as the number of residues in the input PDB file.

For example, here is a string of predicted secondary structure for ubiquitin:


There should be no empty lines or empty spaces in the file.

Only secondary structure of monomeric proteins is currently accepted. See an example of secondary structure file below.

Secondary structure of ubiquitin derived from chemical shifts

Problems? Suggestions? Please contact Wishart group