Descriptors of DPPS for 20 coded amino acids. |
AA |
Abbr. |
V1 a |
V2 |
V3 |
V4 |
V5 |
V6 |
V7 |
V8 |
V9 |
V10 |
Ala |
A |
-1.02 |
-2.88 |
-0.56 |
0.36 |
-6.15 |
-1.68 |
0.04 |
-2.51 |
-1.94 |
-0.01 |
Arg |
R |
1.99 |
4.13 |
-4.41 |
-1.02 |
4.78 |
3.04 |
-9.06 |
6.71 |
4.41 |
0.07 |
Asn |
N |
-2.19 |
1.86 |
0.38 |
-0.13 |
-2.30 |
1.41 |
-5.71 |
-1.11 |
1.73 |
-0.19 |
Asp |
D |
-6.60 |
3.32 |
1.61 |
0.36 |
-3.25 |
1.95 |
-7.36 |
0.14 |
1.24 |
-0.15 |
Cys |
C |
0.21 |
1.12 |
3.42 |
-0.68 |
-2.27 |
-1.22 |
3.11 |
-2.98 |
-1.70 |
1.57 |
Gln |
Q |
-0.47 |
1.16 |
-0.57 |
0.69 |
0.39 |
1.93 |
-5.46 |
-0.84 |
1.93 |
0.85 |
Glu |
E |
-5.39 |
0.65 |
-0.98 |
1.39 |
-0.23 |
2.51 |
-6.84 |
-0.68 |
1.41 |
1.28 |
Gly |
G |
-2.86 |
-5.00 |
-2.97 |
0.53 |
-11.45 |
1.89 |
-2.11 |
-3.99 |
-2.16 |
-0.76 |
His |
H |
0.73 |
2.68 |
-0.66 |
-1.89 |
1.60 |
1.13 |
-1.94 |
-0.11 |
0.44 |
0.15 |
Ile |
I |
1.91 |
-3.13 |
0.01 |
1.14 |
2.70 |
-4.55 |
8.93 |
0.18 |
-1.10 |
-0.76 |
Leu |
L |
1.64 |
-2.57 |
0.00 |
1.35 |
2.62 |
-2.65 |
7.72 |
0.05 |
-1.03 |
-1.81 |
Lys |
K |
2.47 |
1.54 |
-4.28 |
-0.86 |
2.77 |
2.06 |
-6.18 |
2.05 |
2.19 |
-1.65 |
Met |
M |
1.93 |
-0.01 |
1.21 |
0.99 |
2.79 |
-0.56 |
5.33 |
-0.87 |
-0.99 |
-1.09 |
Phe |
F |
2.68 |
0.84 |
2.22 |
0.71 |
5.02 |
-0.30 |
8.60 |
1.13 |
-1.40 |
-0.28 |
Pro |
P |
0.45 |
-2.89 |
1.77 |
-5.81 |
-3.79 |
-0.61 |
0.70 |
1.21 |
-1.67 |
1.79 |
Ser |
S |
-1.76 |
-0.19 |
1.06 |
-0.69 |
-5.72 |
0.14 |
-4.14 |
-2.42 |
-0.13 |
0.69 |
Thr |
T |
-0.55 |
-0.66 |
0.13 |
-0.31 |
-2.76 |
-1.56 |
-2.46 |
-2.12 |
0.17 |
0.08 |
Trp |
W |
3.88 |
1.78 |
1.68 |
2.00 |
9.31 |
0.89 |
7.53 |
4.27 |
-0.23 |
-1.42 |
Tyr |
Y |
2.10 |
1.26 |
1.15 |
0.91 |
5.90 |
0.74 |
3.71 |
3.32 |
0.25 |
1.33 |
Val |
V |
0.83 |
-3.02 |
-0.22 |
0.97 |
0.05 |
-4.55 |
5.61 |
-1.41 |
-1.44 |
0.30 |
a The DPPS descriptors for 20 amino acids are derived by PCA. The electronic properties of the amino acid are characterized by V1-V4, steric properties by V5 and V6, hydrophobic properties by V7 and V8, and hydrogen bond contributions by V9 and V10. |
References |
[1] F. Tian, L. Yang, F. Lv, Q. Yang, P. Zhou, In silico quantitative prediction of peptides binding affinity to human MHC molecule: an intuitive quantitative structure-activity relationship approach, Amino Acids, 36 (2009) 535-554. |
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