Table 1.
Hydrophobicitya and helicityb scales, determined experimentally from the properties of KKAAAXAAAAAXAAWAAXAAAKKKK-amide peptides, and used in development of TM finder
| AA | Hydrophobicitya | Helicityb | KDc | GESd | Eisenberge |
| F | 5.00 (1) | 1.26 (4) | 2.8 (4) | 3.7 (1) | 1.19 (2) |
| W | 4.88 (2) | 1.07 (10) | −0.9 (11) | 1.9 (7) | 0.81 (5) |
| L | 4.76 (3) | 1.28 (2) | 3.8 (3) | 2.8 (4) | 1.06 (4) |
| I | 4.41 (4) | 1.29 (1) | 4.5 (1) | 3.1 (3) | 1.38 (1) |
| M | 3.23 (5) | 1.22 (6) | 1.9 (6) | 3.4 (2) | 0.64 (6) |
| V | 3.02 (6) | 1.27 (3) | 4.2 (2) | 2.6 (5) | 1.08 (3) |
| C | 2.50 (7) | 0.79 (19) | 2.5 (5) | 2 (6) | 0.29 (9) |
| Y | 2.00 (8) | 1.11 (8) | −1.3 (12) | −0.7 (13) | 0.26 (10) |
| A | 0.16 (9) | 1.24 (5) | 1.8 (7) | 1.6 (8) | 0.62 (7) |
| T | −1.08 (10) | 1.09 (9) | −0.7 (9) | 1.2 (9) | −0.05 (12) |
| E | −1.50 (11) | 0.85 (18) | −3.5 (18) | −8.2 (17) | −0.74 (15) |
| D | −2.49 (12) | 0.89 (16) | −3.5 (17) | −9.2 (19) | −0.9 (18) |
| Q | −2.76 (13) | 0.96 (13) | −3.5 (15) | −4.1 (15) | −0.85 (17) |
| R | −2.77 (14) | 0.95 (14) | −4.5 (20) | −12.3 (20) | −2.53 (20) |
| S | −2.85 (15) | 1.00 (11) | −0.8 (10) | 0.6 (11) | −0.18 (13) |
| G | −3.31 (16) | 1.15 (7) | −0.4 (8) | 1.0 (10) | 0.48 (8) |
| N | −3.79 (17) | 0.94 (15) | −3.5 (16) | −4.8 (16) | −0.78 (16) |
| H | −4.63 (18) | 0.97 (12) | −3.2 (14) | −3 (14) | −0.4 (14) |
| P | −4.92 (19) | 0.57 (20) | −1.6 (13) | −0.2 (12) | 0.12 (11) |
| K | −5.00 (20) | 0.88 (17) | −3.9 (19) | −8.8 (18) | −1.5 (19) |
a Hydrophobicity of each guest ``X'' residue, scaled from HPLC retention times (Liu and Deber 1998a).
b Nonpolar phase helical propensity of each guest ``X'' residue, scaled from circular dichroism measurements of peptides in n-butanol (Liu and Deber 1998b; Wang et al. 1999).
c Kyte and Doolittle (1982).
d Engelman et al. (1986).
e Eisenberg et al. (1984).