Table 5 Lipid contact statistics in TM and non-TM proteins with (a) head group and (b) tail group atoms
From: Lipid recognition propensities of amino acids in membrane proteins from atomic resolution data
| Â | Transmembrane (TM) proteins | Non-transmembrane (non-TM) proteins | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Â | Obsa | Expa | Counts | Signed chi-square | P-value | Obsa | Expa | Counts | Signed chi-square | P-value |
(a) Head group | ||||||||||
TRP†, ‡ | 22 | 9.12 | 290 | 18.19 | 2.00E-05 | 3 | 2.23 | 84 | 0.27 | 6.06E-01 |
PHE†, ‡ | 35 | 22.65 | 720 | 6.74 | 9.43E-03 | 13 | 9.06 | 341 | 1.72 | 1.90E-01 |
TYR†, ‡ | 28 | 12.90 | 410 | 17.69 | 2.60E-05 | 21 | 7.25 | 273 | 26.08 | 3.27E-07 |
LEU | 28 | 37.40 | 1189 | -2.36 | 1.24E-01 | 20 | 21.85 | 823 | -0.16 | 6.92E-01 |
ILE | 11 | 23.18 | 737 | -6.40 | 1.14E-02 | 9 | 11.58 | 436 | -0.57 | 4.49E-01 |
CYS | 2 | 4.25 | 135 | -1.19 | 2.76E-01 | 2 | 4.51 | 170 | -1.40 | 2.37E-01 |
MET | 11 | 11.51 | 366 | -0.02 | 8.80E-01 | 1 | 4.22 | 159 | -2.46 | 1.17E-01 |
GLY‡ | 15 | 28.06 | 892 | -6.07 | 1.37E-02 | 15 | 13.54 | 510 | 0.16 | 6.92E-01 |
VAL | 16 | 26.70 | 849 | -4.29 | 3.83E-02 | 14 | 15.11 | 569 | -0.08 | 7.75E-01 |
SER | 14 | 20.57 | 654 | -2.10 | 1.47E-01 | 13 | 15.61 | 588 | -0.44 | 5.08E-01 |
THR | 16 | 19.53 | 621 | -0.64 | 4.24E-01 | 5 | 10.62 | 400 | -2.98 | 8.45E-02 |
ALA | 16 | 29.85 | 949 | -6.42 | 1.13E-02 | 12 | 17.55 | 661 | -1.76 | 1.85E-01 |
HIS†, ‡ | 16 | 8.05 | 256 | 7.85 | 5.09E-03 | 7 | 5.47 | 206 | 0.43 | 5.13E-01 |
ASN†, ‡ | 22 | 11.45 | 364 | 9.73 | 1.82E-03 | 11 | 9.00 | 339 | 0.44 | 5.06E-01 |
PRO | 9 | 15.98 | 508 | -3.05 | 8.09E-02 | 6 | 10.36 | 390 | -1.83 | 1.76E-01 |
GLN†, ‡ | 14 | 8.30 | 264 | 3.91 | 4.80E-02 | 12 | 9.77 | 368 | 0.51 | 4.76E-01 |
ARG†, ‡ | 32 | 13.24 | 421 | 26.58 | 2.53E-07 | 20 | 10.41 | 392 | 8.84 | 2.95E-03 |
LYS†, ‡ | 20 | 12.20 | 388 | 4.98 | 2.56E-02 | 20 | 13.01 | 490 | 3.75 | 5.27E-02 |
ASP | 6 | 11.73 | 373 | -2.80 | 9.43E-02 | 5 | 11.79 | 444 | -3.91 | 4.80E-02 |
GLU | 8 | 14.34 | 456 | -2.80 | 9.40E-02 | 7 | 13.04 | 491 | -2.80 | 9.45E-02 |
(b) Tail group | ||||||||||
TRP†, ‡ | 42 | 12.9 | 290 | 65.46 | 5.93E-16 | 9 | 3.07 | 84 | 11.48 | 7.05E-04 |
PHE†, ‡ | 63 | 32.1 | 720 | 29.82 | 4.75E-08 | 35 | 12.45 | 341 | 40.84 | 1.66E-10 |
TYR†, ‡ | 21 | 18.3 | 410 | 0.41 | 5.22E-01 | 20 | 9.97 | 273 | 10.10 | 1.49E-03 |
LEU†, ‡ | 85 | 53.0 | 1189 | 19.37 | 1.08E-05 | 68 | 30.05 | 823 | 47.92 | 4.43E-12 |
ILE†, ‡ | 48 | 32.8 | 737 | 7.01 | 8.12E-03 | 33 | 15.92 | 436 | 18.33 | 1.86E-05 |
CYS†| 7 | 6.0 | 135 | 0.16 | 6.88E-01 | 5 | 6.21 | 170 | -0.23 | 6.28E-01 |
MET†, ‡ | 24 | 16.3 | 366 | 3.63 | 5.67E-02 | 13 | 5.81 | 159 | 8.92 | 2.83E-03 |
GLY | 17 | 39.7 | 892 | -13.01 | 3.10E-04 | 4 | 18.62 | 510 | -11.48 | 7.03E-04 |
VAL†, ‡ | 47 | 37.8 | 849 | 2.23 | 1.36E-01 | 34 | 20.78 | 569 | 8.42 | 3.72E-03 |
SER | 26 | 29.1 | 654 | -0.34 | 5.61E-01 | 8 | 21.47 | 588 | -8.45 | 3.65E-03 |
THR | 21 | 27.7 | 621 | -1.61 | 2.05E-01 | 7 | 14.61 | 400 | -3.96 | 4.66E-02 |
ALA | 39 | 42.3 | 949 | -0.25 | 6.14E-01 | 24 | 24.14 | 661 | 0.00 | 9.78E-01 |
HIS | 6 | 11.4 | 256 | -2.56 | 1.10E-01 | 3 | 7.52 | 206 | -2.72 | 9.92E-02 |
ASN | 7 | 16.2 | 364 | -5.24 | 2.21E-02 | 3 | 12.38 | 339 | -7.11 | 7.69E-03 |
PRO | 8 | 22.6 | 508 | -9.46 | 2.10E-03 | 9 | 14.24 | 390 | -1.93 | 1.65E-01 |
GLN | 6 | 11.8 | 264 | -2.82 | 9.30E-02 | 2 | 13.44 | 368 | -9.73 | 1.81E-03 |
ARG | 5 | 18.8 | 421 | -10.09 | 1.49E-03 | 7 | 14.31 | 392 | -3.74 | 5.32E-02 |
LYS | 4 | 17.3 | 388 | -10.21 | 1.40E-03 | 8 | 17.89 | 490 | -5.47 | 1.94E-02 |
ASP | 1 | 16.6 | 373 | -14.68 | 1.28E-04 | 2 | 16.21 | 444 | -12.46 | 4.16E-04 |
GLU | 6 | 20.3 | 456 | -10.09 | 1.49E-03 | 3 | 17.93 | 491 | -12.43 | 4.22E-04 |