The following data was calculated using an automated search for twisted amphipathic strands in a non-redundant sequence database with the beta-trefoils removed. Value in row i, column j = 100 * P(seeing res. i, given that it is aligned with res. j) Conditional probabilities for alignment of buried residues: A C D E F G H I K L M N P Q R S T V W Y A 5.8 4.3 10.0 8.3 5.8 5.2 5.4 6.7 5.9 8.0 7.4 5.9 6.1 6.4 5.4 5.5 7.9 8.6 4.9 4.4 C 2.4 18.4 2.9 3.3 2.8 4.7 4.7 2.5 3.3 2.5 2.3 7.1 4.6 3.7 3.7 3.3 2.7 2.4 15.6 3.9 D 3.2 1.7 3.3 2.2 1.4 1.3 4.7 1.9 3.2 1.1 2.0 5.3 1.8 1.6 3.7 2.7 2.7 2.6 2.4 1.1 E 3.2 2.3 2.7 2.1 2.3 1.3 2.9 2.0 4.0 2.1 2.5 5.0 2.5 4.4 5.9 3.3 4.0 2.0 3.8 2.8 F 6.2 5.4 4.8 6.4 9.3 9.5 5.8 8.9 5.3 6.4 10.1 3.4 6.1 6.0 7.4 6.0 5.3 7.7 8.2 8.4 G 3.2 5.3 2.5 2.1 5.5 6.5 4.7 4.2 1.7 4.0 3.2 4.3 6.4 3.3 2.2 4.8 4.0 4.8 4.5 4.2 H 1.0 1.6 2.7 1.4 1.0 1.4 2.2 1.0 1.0 1.1 1.8 1.5 2.1 1.5 1.9 1.3 2.1 0.8 0.4 1.8 I 12.1 8.1 10.4 9.5 15.0 12.3 9.8 17.4 11.5 14.2 7.9 5.9 6.4 13.0 9.5 9.2 9.2 12.2 10.7 10.3 K 2.7 2.7 4.6 4.8 2.3 1.3 2.5 3.0 2.9 1.9 3.1 3.1 1.1 4.8 2.2 4.5 4.3 3.4 5.3 6.2 L 15.1 8.4 6.5 10.0 11.2 12.1 10.9 14.8 7.5 17.0 12.7 10.8 11.1 12.3 9.8 10.9 9.9 14.7 9.1 9.7 M 2.7 1.6 2.3 2.4 3.5 1.9 3.6 1.6 2.4 2.5 6.1 3.7 5.7 1.5 4.0 1.9 3.5 2.1 1.6 2.4 N 1.3 2.7 3.5 2.8 0.7 1.5 1.8 0.7 1.4 1.3 2.2 4.3 1.8 2.6 2.1 1.6 2.9 0.8 1.1 1.5 P 1.1 1.6 1.0 1.2 1.1 1.9 2.2 0.7 0.4 1.1 2.9 1.5 2.9 0.7 0.8 1.3 1.4 1.0 3.8 2.2 Q 2.3 2.4 1.9 4.1 2.1 1.9 2.9 2.6 3.7 2.4 1.4 4.3 1.4 1.5 2.4 3.0 1.6 2.1 1.1 5.1 R 2.3 2.7 4.8 6.4 2.9 1.5 4.3 2.2 2.0 2.2 4.5 4.0 1.8 2.7 2.6 2.5 4.2 2.2 3.3 5.5 S 2.5 2.6 3.8 3.8 2.5 3.4 3.3 2.3 4.3 2.6 2.3 3.4 3.2 3.7 2.7 6.3 4.4 3.1 3.3 3.0 T 5.2 3.2 5.6 6.9 3.3 4.3 7.6 3.4 6.2 3.5 6.3 9.0 5.0 2.9 6.7 6.5 6.8 3.8 1.6 6.0 V 22.4 11.1 21.5 13.4 18.7 20.2 11.6 17.7 18.9 20.5 14.7 9.9 13.9 15.2 13.8 17.7 14.8 19.8 10.2 15.1 W 1.5 8.4 2.3 2.9 2.3 2.2 0.7 1.8 3.4 1.5 1.3 1.5 6.1 0.9 2.4 2.2 0.7 1.2 2.2 2.4 Y 3.5 5.6 2.7 5.9 6.3 5.5 8.0 4.6 10.8 4.2 5.2 5.6 9.6 11.2 10.6 5.4 7.3 4.7 6.5 3.7 Conditional probabilities for alignment of exposed residues: A C D E F G H I K L M N P Q R S T V W Y A 4.8 4.9 4.9 2.8 5.5 7.2 7.2 4.7 4.0 5.7 3.0 4.2 3.9 5.7 3.1 3.3 2.8 5.1 4.0 4.5 C 2.1 16.5 2.5 1.0 1.9 2.5 0.9 2.6 0.9 1.7 3.0 0.7 1.1 1.3 1.5 1.2 1.1 2.0 1.5 2.0 D 4.0 4.6 3.9 2.7 2.7 4.1 4.5 2.7 6.1 2.1 3.0 4.2 3.7 4.1 6.0 4.2 4.6 2.3 2.5 2.1 E 3.9 3.2 4.7 3.1 4.6 3.1 6.9 6.1 12.1 5.0 3.0 8.1 6.0 5.2 11.1 6.3 9.8 5.7 5.5 4.5 F 5.8 4.6 3.5 3.4 6.8 9.3 3.7 4.7 3.5 4.3 4.2 2.7 6.9 6.5 4.5 3.7 2.4 5.3 5.0 6.6 G 5.8 4.6 4.0 1.8 7.1 6.5 3.5 3.8 2.3 3.2 5.6 2.9 3.0 3.1 1.8 2.8 2.7 4.4 2.7 3.6 H 4.1 1.2 3.1 2.8 2.0 2.5 3.7 1.7 1.9 1.7 1.6 2.5 3.4 2.2 2.3 4.3 3.1 2.1 3.0 2.5 I 7.6 10.0 5.5 7.0 7.2 7.7 5.0 14.2 6.2 9.1 7.5 3.0 5.7 5.0 6.4 5.1 3.9 9.0 8.7 6.8 K 6.2 3.2 11.7 13.3 5.2 4.3 5.2 5.9 4.5 6.9 11.0 6.4 3.7 6.2 3.4 8.3 9.5 6.3 6.5 6.8 L 10.7 7.5 4.9 6.8 7.7 7.6 5.8 10.7 8.5 14.5 10.7 6.4 8.0 7.3 8.7 6.4 4.8 10.1 10.0 7.3 M 1.4 3.2 1.7 1.0 1.8 3.1 1.3 2.1 3.2 2.5 1.9 1.7 3.9 2.2 1.1 2.1 1.5 1.5 3.2 2.4 N 2.6 1.0 3.3 3.6 1.6 2.2 2.8 1.2 2.6 2.1 2.3 7.4 2.5 4.3 2.3 3.8 4.0 2.1 2.7 2.9 P 1.8 1.2 2.1 1.9 3.0 1.7 2.8 1.6 1.1 1.9 4.0 1.9 4.1 1.7 2.1 1.9 2.0 1.7 7.7 1.7 Q 5.5 2.9 4.8 3.5 5.9 3.7 3.7 2.9 3.8 3.7 4.7 6.6 3.4 5.7 4.3 5.2 5.7 3.2 3.7 3.7 R 4.3 4.6 10.3 10.9 5.9 3.1 5.6 5.4 3.1 6.3 3.5 5.1 6.2 6.2 3.4 6.3 6.5 8.2 7.7 6.8 S 4.2 3.6 6.6 5.8 4.5 4.4 9.8 4.0 6.9 4.3 6.1 7.8 5.3 7.1 5.9 8.8 8.7 3.7 4.2 4.9 T 5.3 4.6 10.8 13.1 4.2 6.4 10.4 4.5 11.6 4.8 6.3 12.1 8.0 11.3 8.9 12.7 13.8 6.5 3.7 5.5 V 12.1 10.7 6.6 9.5 11.9 12.8 8.7 13.1 9.7 12.5 7.7 7.9 8.7 7.9 14.0 6.9 8.2 13.0 8.7 10.7 W 1.7 1.5 1.3 1.6 2.0 1.4 2.2 2.3 1.8 2.2 3.0 1.9 7.1 1.7 2.4 1.4 0.8 1.6 2.5 1.9 Y 6.2 6.3 3.6 4.4 8.7 6.1 6.1 5.8 6.1 5.3 7.5 6.4 5.0 5.3 6.8 5.3 4.0 6.3 6.2 12.6 Conditional probabilities for one-off alignment of buried residues with exposed residues (columns are exposed, rows are buried). Note that the probabilities of exposed given buried can be calculated from these: A C D E F G H I K L M N P Q R S T V W Y A 4.9 4.8 4.1 3.5 4.5 5.7 7.8 4.5 2.9 4.4 4.3 4.1 4.4 3.8 3.2 5.2 4.7 4.6 6.7 3.8 C 1.6 2.3 3.1 2.4 1.9 1.6 2.4 1.5 2.6 1.3 1.5 1.5 1.3 1.6 2.6 3.6 1.9 1.7 2.7 2.2 D 3.6 3.9 2.2 2.0 4.1 3.9 3.1 3.4 3.1 3.6 3.7 5.6 4.0 2.1 2.5 3.4 3.3 3.4 2.2 2.8 E 5.5 5.5 5.7 4.3 6.5 6.9 4.5 6.8 6.1 6.8 7.5 4.1 4.2 4.7 5.7 4.7 5.4 7.2 5.5 5.6 F 4.6 4.4 4.2 5.5 4.1 5.0 6.7 5.8 3.3 4.6 5.1 3.0 4.2 4.3 6.0 5.4 4.7 4.2 5.7 4.4 G 5.0 3.9 4.0 5.6 3.2 6.1 4.5 3.5 4.6 4.0 1.7 4.4 5.0 5.3 4.8 5.2 5.5 3.8 4.0 5.3 H 2.9 3.2 1.2 1.8 3.3 2.1 2.0 2.3 1.8 2.8 2.5 1.8 2.5 2.1 2.0 3.0 2.8 2.5 2.6 1.6 I 8.1 5.9 9.0 9.8 6.9 7.3 10.5 7.6 8.2 6.1 6.9 7.7 7.5 6.1 7.9 6.9 9.6 6.9 6.8 6.5 K 6.6 7.7 6.8 6.3 6.9 6.1 5.8 7.3 8.3 6.8 5.7 7.7 5.8 8.2 6.1 3.9 5.0 6.6 5.6 8.2 L 9.6 5.2 11.3 9.6 6.8 8.8 7.6 8.8 7.9 8.9 8.0 7.9 8.5 7.4 10.1 11.2 9.7 8.7 6.3 7.0 M 2.3 1.4 1.7 3.1 1.6 2.1 2.4 2.0 1.9 1.9 2.3 2.0 3.7 1.6 2.1 1.3 2.7 1.7 1.7 1.9 N 3.1 4.8 2.7 2.2 3.4 3.5 3.6 2.9 2.0 2.5 4.0 2.0 2.3 5.0 3.2 3.7 2.2 3.0 1.4 2.7 P 2.8 2.0 2.4 2.3 1.8 1.6 1.6 1.8 2.4 2.0 2.6 2.1 2.9 3.2 2.1 1.9 2.0 2.5 3.1 2.0 Q 4.6 3.2 3.8 2.3 4.2 3.6 3.8 4.4 4.1 4.5 4.3 4.3 2.3 2.2 3.5 2.7 3.7 4.1 6.4 5.5 R 5.8 5.0 6.8 6.1 7.1 5.1 5.1 5.7 6.2 6.4 4.8 7.2 6.2 7.6 5.4 5.0 4.4 6.4 5.6 5.9 S 5.3 7.5 5.2 5.7 7.5 6.8 4.7 6.7 3.4 6.4 4.4 6.3 5.2 6.8 4.1 4.1 3.4 5.1 5.1 6.1 T 7.4 9.6 6.7 5.7 9.7 8.0 6.0 7.9 9.5 9.0 8.8 6.4 6.7 7.4 6.6 8.4 8.3 9.5 6.3 9.0 V 8.9 9.1 13.3 13.1 9.9 8.8 10.7 9.5 9.7 11.0 13.2 11.2 11.8 11.1 11.2 11.4 11.7 11.4 7.7 9.8 W 1.4 1.7 1.9 3.0 1.8 1.1 2.7 1.9 2.3 2.0 1.3 3.0 1.3 1.6 3.2 1.4 2.2 1.5 1.3 1.2 Y 6.0 8.9 3.7 5.9 4.8 5.8 4.5 5.8 9.6 5.0 7.3 7.6 9.8 7.9 7.7 7.5 6.6 5.1 13.1 8.4