Prediction Of Protein Secondary Sturcture By Using Local Alignments

Method is based on comparison of charcteristics, calculated for positions of processing sequence, such as aminoacid exposure to water, submergence of aminoacid residue into molecule body etc, with the same characteristics, obtained from analysis of PDB-files in database.

Input sequence for this program should be in fasta format with 80 or less sequence letters per line.

Overall 3-state (a, b, c) prediction gives about 75% correctly predicted residues. THIS ACCURACY IS REACHED WITHOUT USING MULTIPLE ALIGNMENT INPUT when it is higher SEE ALSO "SSP" and "NNssp" programs.