Property Based Indices


In the next table are shown all Property Based Indices implemented in ProtDCal. The table indicates the value for an specific amino acid

Names Mw HP IP ECI ISA Vm Z1 Z2 Z3 Pa Pb Pt
ALA 71 1.8 6.01 0.05 62.90 88.6 0.07 -1.73 0.091.290.900.78
ARG 156 -4.5 10.76 1.69 52.98 173.4 2.88 2.52 -3.440.960.990.88
ASN 114 -3.5 5.41 1.31 17.87 114.1 3.22 1.45 0.840.900.761.28
ASP 115 -3.5 2.77 1.25 18.46 111.1 3.64 1.13 2.361.040.721.41
CYS 103 2.5 5.07 0.15 78.51 108.5 0.71 -0.97 4.131.110.740.80
GLN 128 -3.5 3.22 1.31 19.53 143.8 3.08 0.39 -0.071.440.751.00
GLU 129 -3.5 5.65 1.36 30.19 138.4 2.18 0.53 -1.141.270.800.97
GLY 57 -0.4 5.97 0.02 19.93 60.1 2.23 -5.36 0.300.560.921.64
HIS 137 -3.2 7.59 0.56 87.38 153.2 2.41 1.74 1.111.221.080.69
ILE 113 4.5 6.02 0.09 149.77 166.7 -4.44 -1.68 -1.030.971.450.51
LEU 113 3.8 5.98 0.01 154.35 166.7 -4.19 -1.03 -0.981.301.020.59
LYS 128 -3.9 9.74 0.53 102.78 168.6 2.84 1.41 -3.141.230.770.96
MET 131 1.9 5.74 0.34 132.22 162.9 -2.49 -0.27 -0.411.470.970.39
PHE 147 2.8 5.48 0.14 189.42 189.9 -4.92 1.30 0.451.071.320.58
PRO 97 -1.6 6.48 0.16 122.35 112.7 -1.22 0.88 2.230.520.641.91
SER 87 -0.8 5.68 0.56 19.75 89.0 1.96 -1.63 0.570.820.951.33
THR 101 -0.7 5.87 0.65 59.44 116.1 0.92 -2.09 -1.400.821.211.03
TRP 186 -0.9 5.89 1.08 179.16 227.8 -4.75 3.65 0.850.991.140.75
TYR 163 -1.3 5.66 0.72 132.16 193.6 -1.39 2.32 0.010.721.251.05
VAL 99 4.2 5.97 0.07 120.91 140.0 -2.69 -2.53 -1.290.911.490.47

The properties implemented are:

References

Zamyatin, A.A. Protein Volume in Solution, Prog. Biophys. Mol. Biol. 1972, 24, 107-123.

Hellberg, S.; Sjostrom, M.; Skagerberg, B.; Wold, S. Peptide Quantitative Structure-Activity Relationship, a Multivariate Approach. J. Med. Chem. 1987, 30, 1126-1135.

Collantes, E. R.; Dunn III, W. J. Amino Acid Side Chain Descriptors for Quantitative Structure-Activity Relationship Studies of Peptide Analogues. J. Med. Chem. 1995, 38, 2705-2713.

Hoop, T. P.; Woods, K. R. Prediction of Protein Antigenic Determinants from Amino Acid Sequences. Proc Natl Acad Sci USA. 1981, 78, 3824.

Kyte, J.; Doolitle, R. F. A Simple Method for Displaying the Hydropathic Character of a Protein. J. Mol. Biol. 1982, 157, 105-132.

Hellberg, S.; Sjostrom, M.; Skagerberg, B.; Wold, S. Peptide Quantitative Structure-Activity Relationship, a Multivariate Approach. J. Med. Chem. 1987, 30, 1126-1135.

Levitt. M. Biochemistry. 1978, 17, 4277-4285.

Katrin, S.; Karelson, M.; Jarv, J. Modeling of the Amino Acid Side Chain Effects on Peptide Conformation. Bioorg. Chem. 1999, 27, 432-433.