Show protein structure match: Toggle display of protein match symbols
Selected Protein Structure SAI: The protein secondary structure SAI used as reference for match computation. The default is 'PFOLD'.
Filter SAI names for: Via a filter the SAIs shown in the option menu can be narrowed down to a selection of SAIs whose names contain the specified string. This is useful for a great number of SAIs to quickly find the one that should be used. Default is 'pfold'.
Match Method: The used method for protein structure match computation. Default is 'Secondary Structure <-> Sequence' which is most probable the method of choice. Details on the different methods can be found below in section 'Description of Match Methods'.
Match Symbols (only relevant for the match method 'Secondary Structure <-> Sequence'): Ten symbols that represent the match quality ranging from 0 - 100% in steps of 10%. Take care to enter exactly ten symbols. Note that spaces (' ') are symbols, too.
Pair definitions (only relevant for the match methods 'Secondary Structure <-> Secondary Structure' and 'Secondary Structure <-> Sequence (Full Prediction)'). Each line contains two textfields:
The left textfield contains one or more amino acid pairs. Each pair contains two characters (amino acids, gaps-characters, ...). Pairs are separated by spaces (' ').
The right textfield contains the match symbol used for each of the specified pairs.