* Trans: Free energy of transfer to surface (Bull & Breese, Arch. Biophys. Biochem. 161, 665 (1974) )
threshold: 0
minval   : -1650
maxval   : 970
X  0
A  610 
R  690 
N  890 
D  610 
C  360 
Q  970 
E  510 
G  810 
H  690 
I -1450 
L -1650 
K  460 
M -660 
F -1520 
P -170 
S  420 
T  290 
W -1200 
Y -1430 
V -750 
;
;
>
* AccSA: Average accessibility surface area (Janin et al., J. Mol. Biol. 125, 357 (1978) )
threshold:
minval   : 15.5
maxval   : 103
X  40
A  27.8 
R  94.7 
N  60.1 
D  60.6 
C  15.5 
Q  68.7 
E  68.2 
G  24.5 
H  50.7 
I  22.8 
L  27.6 
K  103 
M  33.5 
F  25.5 
P  51.5 
S  42 
T  45 
W  34.7 
Y  55.2 
V  23.7 
;
;
>
* %Bur: Percentage of buried residues (Janin et al., J. Mol. Biol. 125, 357 (1978) )
threshold:
minval   : 0
maxval   : 100
X  50
A  51 
R  5 
N  22 
D  19 
C  74 
Q  16 
E  16 
G  52 
H  34 
I  66 
L  60 
K  3 
M  52 
F  58 
P  25 
S  35 
T  30 
W  49 
Y  24 
V  64 
;
;
>
* %Exp: Percentage of exposed residues (Janin et al., J. Mol. Biol. 125, 357 (1978) )
threshold:
minval   : 0
maxval   : 100
X  50
A  15 
R  67 
N  49 
D  50 
C  5 
Q  56 
E  55 
G  10 
H  34 
I  13 
L  16 
K  85 
M  20 
F  10 
P  45 
S  32 
T  32 
W  17 
Y  41 
V  14 
;
;
>
* HphoX: Hydrophobic index (Ponnuswamy et al., Biochim. Biophys. Acta 623, 301 (1980) )
threshold:
minval   : 0
maxval   : 3.77
X  1
A  .87 
R  .85 
N  9.E-02 
D  .66 
C  1.52 
Q  0 
E  .67 
G  .1 
H  .8 
I  3.15 
L  2.17 
K  1.64 
M  1.67 
F  2.87 
P  2.77 
S  .07 
T  .07 
W  3.77 
Y  2.67 
V  1.87 
;
;
>
* HphFl: Hydrophobicity in folded form (Ponnuswamy et al., BBA 623, 301 (1980) )
threshold:
minval   : 10.8
maxval   : 15.07
X  12
A  12.28 
R  11.49 
N  11 
D  10.97 
C  14.93 
Q  11.28 
E  11.19 
G  12.01 
H  12.84 
I  14.77 
L  14.1 
K  10.8 
M  14.33 
F  13.43 
P  11.19 
S  11.26 
T  11.65 
W  12.95 
Y  13.29 
V  15.07 
;
;
>
* HphUf: Hydrophobicity in unfolded form (Ponnuswamy et al., BBA 623, 301 (1980) )
threshold:
minval   : 4
maxval   : 5.08
X  4.7
A  4.66 
R  4.68 
N  4.87 
D  4.79 
C  4 
Q  4.61 
E  4.81 
G  4.7 
H  4.99 
I  4.78 
L  4.73 
K  5.08 
M  4.5 
F  4.44 
P  4.55 
S  4.33 
T  4.75 
W  4.54 
Y  4.76 
V  4.69 
;
;
>
* HphGn: Hydrophobicity gain (Ponnuswamy et al., BBA 623, 301 (1980) )
threshold:
minval   : 2.12
maxval   : 3.36
X  2.6
A  2.63 
R  2.45 
N  2.27 
D  2.29 
C  3.36 
Q  2.45 
E  2.31 
G  2.55 
H  2.57 
I  3.08 
L  2.98 
K  2.12 
M  3.18 
F  3.02 
P  2.46 
S  2.6 
T  2.55 
W  2.85 
Y  2.79 
V  3.21 
;
;
>
* Polar: Polarity (Ponnuswamy et al., Biochim. Biophys. Acta 623, 301 (1980) )
threshold:
minval   : 0
maxval   : 52
X  5
A  0 
R  52 
N  3.38 
D  40.7 
C  1.48 
Q  3.53 
E  49.91 
G  0 
H  51.6 
I  .15 
L  .45 
K  49.5 
M  1.43 
F  .35 
P  1.58 
S  1.67 
T  1.66 
W  2.1 
Y  1.61 
V  .13 
;
;
>
* HphAH: Surrounding hydrophobicity in a-helix (Ponnuswamy et al., BBA 623, 301 (1980) )
threshold:
minval   : 10.98
maxval   : 15.36
X  13
A  13.65 
R  11.28 
N  12.24 
D  10.98 
C  14.49 
Q  11.3 
E  12.55 
G  15.36 
H  11.59 
I  14.63 
L  14.01 
K  11.96 
M  13.4 
F  14.08 
P  11.51 
S  11.26 
T  13 
W  12.06 
Y  12.64 
V  12.88 
;
;
>
* HphBS: Surrounding hydrophobicity in b-sheet (Ponnuswamy et al. BBA 623, 301 (1980) )
threshold:
minval   : 11.79
maxval   : 16.49
X  14
A  14.6 
R  13.24 
N  11.79 
D  13.78 
C  15.9 
Q  12.02 
E  13.59 
G  14.18 
H  15.35 
I  14.1 
L  16.49 
K  13.28 
M  16.23 
F  14.18 
P  14.1 
S  13.36 
T  14.5 
W  13.9 
Y  14.76 
V  16.3 
;
;
>
* HphBT: Surrounding hydrophobicity in b-turn (Ponnuswamy et al., BBA 623, 301 (1980) )
threshold:
minval   : 9.93
maxval   : 15
X  11
A  10.67 
R  11.05 
N  10.85 
D  10.21 
C  14.15 
Q  11.71 
E  11.71 
G  10.95 
H  12.07 
I  12.95 
L  13.07 
K  9.93 
M  15 
F  13.27 
P  10.62 
S  11.18 
T  10.53 
W  11.41 
Y  11.52 
V  13.86 
;
;
>
* AccRd: Accessibility reduction ratio (Ponnuswamy et al., BBA 623, 301 (1980) )
threshold:
minval   : 1.79
maxval   : 7.69
X  3
A  3.7 
R  2.53 
N  2.12 
D  2.6 
C  3.03 
Q  2.7 
E  3.3 
G  3.13 
H  3.57 
I  7.69 
L  5.88 
K  1.79 
M  5.21 
F  6.6 
P  2.12 
S  2.43 
T  2.6 
W  6.25 
Y  3.03 
V  7.14 
;
;
>
* SurRe: Average number of surrounding residues (Ponnuswamy BBA 623, 301 (1980) )
threshold:
minval   : 4.88
maxval   : 7.86
X  5
A  6.05 
R  5.7 
N  5.04 
D  4.95 
C  7.86 
Q  5.45 
E  5.1 
G  6.16 
H  5.8 
I  7.51 
L  7.37 
K  4.88 
M  6.39 
F  6.62 
P  5.65 
S  5.53 
T  5.81 
W  6.98 
Y  6.73 
V  7.62 
;
;
>
* Volum: Volume (Chothia, Nature 254, 304 (1975) )
threshold:
minval   : 66.4
maxval   : 237.6
X  120
A  91.5 
R  202 
N  135.2 
D  124.5 
C  118 
Q  161.1 
E  155.1 
G  66.4 
H  167.3 
I  168.8 
L  167.9 
K  171.3 
M  170.8 
F  203.4 
P  129.3 
S  99.1 
T  122.1 
W  237.6 
Y  203.6 
V  141.7 
;
;
>
* LFlex: Local flexibility (Ragone et al. 1989)
threshold: 1300
minval   : 33.96
maxval   : 6374.07
X  1000
A  705.42 
R  1484.28 
N  513.4601 
D  34.96 
C  2412.56 
Q  1087.83 
E  1158.66 
G  33.18 
H  1637.13 
I  5979.37 
L  4985.73 
K  699.69 
M  4491.66 
F  5203.86 
P  431.96 
S  174.76 
T  601.88 
W  6374.07 
Y  4291.1 
V  4474.42 
;
;
>
* Flexi: Flexibility (Bhaskaran and Ponnuswamy 1988)
threshold:
minval   : 0.295
maxval   : 0.529
X  0.4
A  .357 
R  .529 
N  .463 
D  .511 
C  .346 
Q  .493 
E  .497 
G  .544 
H  .323 
I  .462 
L  .365 
K  .466 
M  .295 
F  .314 
P  .509 
S  .507
T  .444 
W  .305 
Y  .42 
V  .386 
;
;
>
* Fx0RN: Flexibility for no rigid neighbours (Karplus & Schulz, Naturwiss. 72, 212 (1985) )
threshold: 1
minval   : 0.925
maxval   : 1.169
X  1
A  1.041 
R  1.038 
N  1.117 
D  1.033 
C  .96 
Q  1.165 
E  1.094 
G  1.142 
H  .982 
I  1.002 
L  .967 
K  1.093 
M  .947 
F  .93 
P  1.055 
S  1.169 
T  1.073 
W  .925 
Y  .961 
V  .982 
;
;
>
* Fx1RN: Flexibility for one rigid neighbour  (Karplus & Schulz, Naturwiss. 72, 212 (1985) )
threshold: 1
minval   : 0.862
maxval   : 1.089
X  1
A  .946 
R  1.028 
N  1.006 
D  1.089 
C  .878 
Q  1.028 
E  1.036 
G  1.042 
H  .952 
I  .892 
L  .961 
K  1.082 
M  .862 
F  .912 
P  1.085 
S  1.048 
T  1.051 
W  .917 
Y  .93 
V  .927 
;
;
>
* Fx2RN: Flexibility for two rigid neighbours  (Karplus & Schulz, Naturwiss. 72, 212 (1985) )
threshold:
minval   : 0.803
maxval   : 1.057
X  0.9
A  .892 
R  .901 
N  .93 
D  .932 
C  .925 
Q  .885 
E  .933 
G  .923 
H  .894 
I  .872 
L  .921 
K  1.057 
M  .804 
F  .914 
P  .932 
S  .923 
T  .934 
W  .803 
Y  .837 
V  .913 
;
;
>
* HphEi: Hydrophobicity (Eisenberg, Ann. Rev. Biochem. 53, 595 (1984) )
threshold: 0
minval   : -1.76
maxval   : 0.73
X  0
A  .25 
R -1.76 
N -.64 
D -.72 
C  .04 
Q -.69 
E -.62 
G  .16 
H -.4 
I  .73 
L  .53 
K -1.1 
M  .26 
F  .61 
P -.07 
S -.26 
T -.18 
W  .37 
Y  .02 
V  .54 
;
;
>
* AccSS: Accessible surface area in the standard state (Rose et al., Sci. 229, 834 (1985) )
threshold:
minval   : 88.1
maxval   : 266.3
X  150
A  118.1 
R  256 
N  165.5 
D  158.7 
C  146.1 
Q  193.2 
E  186.2 
G  88.1 
H  202.5 
I  181 
L  193.1 
K  225.8 
M  203.4 
F  222.8 
P  146.8 
S  129.8 
T  152.5 
W  266.3 
Y  236.8 
V  164.5 
;
;
>
* AccFl: Average accessible surface area in folded proteins (Rose et al., Sci. 229, 834 (1985) )
threshold:
minval   : 23
maxval   : 110.3
X  40
A  31.5 
R  93.8 
N  62.2 
D  60.9 
C  13.9 
Q  74 
E  72.3 
G  25.2 
H  46.7 
I  23 
L  29 
K  110.3 
M  30.5 
F  28.7 
P  53.7 
S  44.2 
T  46 
W  41.7 
Y  59.1 
V  23.5 
;
;
>
* SuHph: Average surrounding hydrophobicity (Manavalan et al. Nature 275, 673 (1978) )
threshold:
minval   : 10.85
maxval   : 15.71
X  12
A  12.97 
R  11.72 
N  11.42 
D  10.85 
C  14.64 
Q  11.76 
E  11.89 
G  12.43 
H  12.16 
I  15.67 
L  14.9 
K  11.36 
M  14.39 
F  14 
P  11.37 
S  11.23 
T  11.69 
W  13.93 
Y  13.42 
V  15.71 
;
;
>
* HphiH: Hydrophilicity (Hopp and Woods, PNAS 78, 3824 (1981) )
threshold: 0
minval   : -3.4
maxval   : 3
X  0
A -.5 
R  3 
N  .2 
D  3 
C -1 
Q  .2 
E  3 
G  0 
H -.5 
I -1.8 
L -1.8 
K  3 
M -1.3 
F -2.5 
P  0 
S  .3 
T -.4 
W -3.4 
Y -2.3 
V -1.5 
;
;
>
* Hypat: Hydropathy (Kyte and Doolittle, J. Mol. Biol. 157, 105 (1982) )
threshold: 0
minval   : -3
maxval   : 3
X  0
A  1.8 
R -4.5 
N -3.5 
D -3.5 
C  2.5 
Q -3.5 
E -3.5 
G -.4 
H -3.2 
I  4.5 
L  3.8 
K -3.9 
M  1.9 
F  2.8 
P -1.6 
S -.8 
T -.7 
W -.9 
Y -1.3 
V  4.2 
;
;
>
* HphiP: Hydrophilicity from HPLC (Parker et al. Biochemistry 25, 5425 (1986) )
threshold: 0
minval   : 10
maxval   : -10
X  0
A  2.1 
R  4.2 
N  7 
D  10 
C  1.4 
Q  6 
E  7.8 
G  5.7 
H  2.1 
I -8 
L -9.2 
K  5.7 
M -4.2 
F -9.2 
P  2.1 
S  6.5 
T  5.2 
W -10 
Y -1.9 
V -3.7 
;
;
>
* HphoJ: Hydrophobicity (Jones, J. Theor. Biol. 125, 357 (1975) )
threshold:
minval   : 0
maxval   : 3.77
X  1
A  .87 
R  .85 
N  0.09
D  .66 
C  1.52 
Q  0 
E  .67 
G  .1 
H  .87 
I  3.15 
L  2.17 
K  1.64 
M  1.67 
F  2.87 
P  2.77 
S  .07 
T  .07 
W  3.77 
Y  2.67 
V  1.87 
;
;
>
* Refrc: Refractivity (Jones, J. Theor. Biol. 125, 357 (1975) )
threshold:
minval   : 0
maxval   : 42.53
X  15
A  4.34 
R  26.66 
N  13.28 
D  12 
C  35.77 
Q  17.56 
E  17.26 
G  0 
H  21.81 
I  19.06 
L  18.78 
K  21.29 
M  21.64 
F  29.4 
P  10.93 
S  6.35 
T  11.01 
W  42.53 
Y  31.53 
V  13.92 
;
;
>
* AHLev: Normalized frequency of a-helix with weights (Levitt, Biochem. 17, 4277 (1978) )
threshold:
minval   : 0.52
maxval   : 1.47
X  1
A  1.29 
R  .96 
N  .9 
D  1.04 
C  1.11 
Q  1.27 
E  1.44 
G  .56 
H  1.22 
I  .97 
L  1.3 
K  1.23 
M  1.47 
F  1.07 
P  .52 
S  .82 
T  .82 
W  .99 
Y  .72 
V  .91 
;
;
>
* BSLev: Normalized frequency of b-sheet with weights (Levitt, Biochem. 17, 4277 (1978) )
threshold:
minval   : 0.64
maxval   : 1.49
X  1
A  .9 
R  .99 
N  .76 
D  .72 
C  .74 
Q  .8 
E  .75 
G  .92 
H  1.08 
I  1.45 
L  1.02 
K  .77 
M  .97 
F  1.32 
P  .64 
S  .95 
T  1.21 
W  1.14 
Y  1.25 
V  1.49 
;
;
>
* BTLev: Normalized frequency for reverse turn with weights (Levitt, Biochem. 17, 4277 (1978) )
threshold:
minval   : 0.39
maxval   : 1.91
X  1
A  .78 
R  .88 
N  1.28 
D  1.41 
C  .8 
Q  .97 
E  1 
G  1.64 
H  .69 
I  .51 
L  .59 
K  .96 
M  .39 
F  .58 
P  1.91 
S  1.33 
T  1.03 
W  .75 
Y  1.05 
V  .47 
;
;
>
* OMH:   Barrell, Bankier and Drouin (1979)
threshold: 0
minval   : -1.3
maxval   : 1.9
X  0
A  -0.4 
R  -0.59 
N  -0.92 
D  -1.3 
C  0.17 
Q  -0.91 
E  -1.2 
G  -0.67 
H  -0.64 
I  1.2 
L  1.2 
K  -0.67 
M  1.0 
F  1.9 
P  -0.49 
S  -0.55 
T  -0.28 
W  0.5 
Y  1.7 
V  0.91 
;
;
>
* PEST:  Signature for rapidly degraded proteins
threshold:
minval   : 0
maxval   : 1
X  0
A  0
R  0
N  0
D  0
C  0 
Q  0
E  1
G  0
H  0
I  0
L  0
K  0
M  0
F  0
P  1
S  1
T  1
W  0
Y  0
V  0
;
;
>
* Charg: Charge of amino acids (example scale)
threshold: 0
minval   : -1
maxval   : 1
X  0
A  0
R  1
N  0
D  -1
C  0 
Q  0
E  -1
G  0
H  0.5
I  0
L  0
K  1
M  0
F  0
P  0
S  0
T  0
W  0
Y  0
V  0
;
;
>
* AROM:  Local concentration of aromatic amino acids
threshold:
minval   : 0
maxval   : 1
X  0
A  0
R  0
N  0
D  0
C  0 
Q  0
E  0
G  0
H  0
I  0
L  0
K  0
M  0
F  1
P  0
S  0
T  0
W  1
Y  1
V  0
;
;