Table 1 Amino acid descriptor sets analyzed in the current study
Descriptor set | Type | Derived by | # of components | Variance explained | AAs covered |
|---|---|---|---|---|---|
BLOSUM | Physicochemical and substitution matrix | VARIMAX | 10 | n/a | 20 |
FASGAI | Physicochemical | Factor Analysis | 6 | 84% | 20 |
MSWHIM | 3D electrostatic potential | PCA | 3 | 61% | 20 |
ProtFP (PCA3) | Physicochemical | PCA | 3 | 75% | 20 |
ProtFP (PCA5) | Physicochemical | PCA | 5 | 83% | 20 |
ProtFP (PCA8) | Physicochemical | PCA | 8 | 92% | 20 |
ProtFP (Feature) | Feature based | Hashing | n/a | n/a | 20 |
ST-scales | Topological | PCA | 5 | 91% | 167 |
T-scales | Topological | PCA | 8 | 72% | 135 |
VHSE | Physicochemical | PCA | 8 | 77% | 20 |
Z-scales (3) | Physicochemical | PCA | 3 | n/a | 87 |
Z-scales (5) | Physicochemical | PCA | 5 | 87% | 87 |
Z-scales (Binned) | Physicochemical | PCA followed by binning | n/a | n/a | 20 |