Prediction of protein secondary structure by combining nearest-neighbor algorithms and multiple sequence alignment Salamov & Solovyev Salamov AA, Solovyev VV (1995) Prediction of protein secondary structure by combinin nearest-neighbr algorithms and multiple sequence alignment. J Mol Biol, 247 : 11-15 protein:2d structure nnssp nnssp perl "clu2nnssp -I$infile -O$infile.nns -S$seq; nnssp $infile.nns" 0 infile Clustalw Alignment File perl "" 1 100 readseq_ok_alig perl 1 seq Name of the sequence to analyze perl "" 1 nnsspfile *.nns outfile Output File perl " $value" nnssp.results 2