H DOSZ010101 D Amino acid similarity matrix based on the sausage force field (Dosztanyi-Torda, 2001) R PMID:11524370 A Dosztanyi, Z. and Torda, A.E. T Amino acid similarity matrices based on force fields J Bioinformatics. 17, 686-699 (2001) * #SM_SAUSAGE * #Amino acid similarity matrix based on the sausage force field * #Supplementary material * #http://www.rsc.anu.edu.au/~zsuzsa/suppl/matrices/SM_SAUSAGE * #Zsuzsanna Doszt?yi and Andrew E. Torda * #Amino acid similarity matrices based on force fields * #The amino acids are ordered according to the first principal component of the SM_SAUSAGE matrix. * #The native cysteine residues were devided into two subsets depending on their covalent state. * #Three rows correspond to cysteines: disulfide bonded (O), free cysteines (J) and all cysteines (C). M rows = ARNDCQEGHILKMFPSTWYVJO, cols rows = ARNDCQEGHILKMFPSTWYV 15.4 -4.9 -8.1 -10.7 38.6 -7.4 -10.7 -6.0 0.2 23.0 20.9 -10.9 17.8 18.9 -9.3 -1.6 -5.2 17.6 18.9 23.7 6.4 -3.1 -5.3 -9.0 23.8 -6.5 -10.0 -8.3 -1.1 12.3 10.4 -7.9 9.6 9.8 -8.8 -2.1 -5.5 8.6 10.8 14.6 4.0 -6.1 -3.4 -4.8 23.5 -7.2 -9.2 -7.6 -1.9 8.6 7.1 -10.1 6.2 7.8 -8.7 -1.3 -5.2 6.4 9.5 11.5 4.1 -7.2 -2.7 0.2 22.2 -6.5 -6.0 -7.1 -2.7 5.3 4.8 -10.6 4.4 5.7 -8.2 -0.1 -4.9 4.6 8.0 8.1 19.2 -6.6 -7.0 -7.4 111.4 -6.3 -12.2 -3.0 11.4 31.0 27.4 -12.3 26.1 35.3 0.2 2.6 1.5 25.9 30.3 31.5 6.3 -4.8 -5.3 -6.8 24.0 -6.0 -8.3 -8.4 -1.4 11.2 10.0 -8.9 8.9 9.2 -9.0 -2.8 -6.1 8.3 10.4 13.1 5.3 -5.3 -4.5 -3.7 21.3 -5.8 -6.0 -7.7 -1.8 8.7 7.4 -9.1 6.7 7.4 -7.9 -2.3 -5.8 6.8 8.7 10.8 7.3 -8.2 -6.9 -8.4 30.7 -9.0 -10.8 1.2 -2.9 7.8 6.0 -11.6 7.1 8.8 -7.1 -1.5 -7.3 8.4 9.8 11.1 6.8 -6.0 -6.1 -8.0 30.5 -7.8 -10.7 -7.5 -0.7 14.1 11.8 -10.5 10.5 12.3 -8.2 -2.4 -5.7 9.8 13.2 16.1 12.7 -5.6 -11.3 -15.0 39.5 -9.0 -13.5 -12.7 0.6 35.7 29.5 -12.6 22.8 25.3 -8.9 -6.2 -4.7 21.3 24.1 35.5 13.0 -5.7 -10.1 -13.3 39.5 -8.2 -12.4 -11.5 0.9 31.9 27.8 -12.3 21.8 23.6 -9.2 -5.1 -5.3 20.1 22.3 31.1 5.3 -3.0 -4.4 -7.3 20.3 -5.7 -8.7 -7.3 -1.5 8.5 7.0 -6.7 7.2 7.0 -8.2 -1.7 -5.6 5.8 8.1 10.9 11.2 -5.6 -8.8 -11.6 36.3 -7.7 -11.4 -10.3 0.5 25.5 22.4 -11.2 18.8 19.4 -8.7 -4.2 -5.7 17.3 19.0 25.7 11.4 -6.5 -9.3 -11.9 39.2 -8.7 -12.5 -9.4 0.4 27.2 23.2 -12.2 18.9 21.5 -8.0 -4.1 -5.3 18.4 21.0 27.5 4.9 -7.8 -7.3 -7.5 26.7 -8.5 -10.0 -6.2 -1.2 12.5 9.1 -10.4 8.2 10.1 2.0 -2.1 -5.3 8.9 10.0 14.3 7.3 -5.9 -4.3 -4.9 28.2 -7.1 -9.3 -5.3 -1.6 8.8 7.9 -10.0 7.8 8.9 -7.1 3.0 -3.0 7.6 10.5 11.7 6.7 -5.4 -5.2 -7.0 27.1 -7.3 -10.1 -8.0 -1.5 13.6 10.9 -10.1 9.3 11.0 -7.3 0.8 -2.6 9.0 12.3 16.2 9.9 -6.9 -8.8 -10.7 37.4 -8.6 -11.7 -9.0 -0.3 23.2 19.7 -12.1 16.2 18.4 -7.4 -3.8 -5.5 17.0 19.1 23.8 10.2 -6.5 -8.6 -10.7 37.4 -8.4 -11.6 -8.8 -0.0 23.7 19.9 -11.7 16.6 19.1 -7.7 -3.9 -5.3 16.9 19.8 24.6 13.4 -5.4 -10.7 -14.8 41.3 -8.6 -13.4 -11.4 1.0 35.9 29.2 -12.6 23.0 26.0 -8.4 -5.5 -3.9 22.1 25.1 36.7 14.8 -7.1 -10.4 -13.9 48.4 -9.3 -13.4 -8.9 1.0 30.8 27.0 -13.5 23.1 25.1 -10.1 -3.1 -4.6 21.6 24.9 31.8 24.8 -4.6 -3.2 -1.4 166.7 -1.7 -10.1 4.6 20.6 31.6 28.3 -9.3 29.4 44.3 10.4 8.8 7.5 30.9 36.2 32.3 //