Prediction of hot spot residues at protein-protein interfaces by combining machine learning and energy-based methods

Table 3 Weight of energy terms in the scoring function

Feature (energy term)	Weight in SVM	Weight in TSVM
Side-chain van der Waals	0.29 ± 0.05	0.37 ± 0.08
Side-chain hydrogen bond	0.15 ± 0.01	0.24 ± 0.03
Side-chain electrostatics	0.07 ± 0.03	0.08 ± 0.02
Side-chain desolvation	0.22 ± 0.01	0.19 ± 0.05
Environment van der Waals	0.17 ± 0.01	0.12 ± 0.04
Environment hydrogen bond	0.22 ± 0.04	0.24 ± 0.03
Environment electrostatics	0.07 ± 0.02	0.02 ± 0.03
Environment desolvation	0.12 ± 0.04	0.16 ± 0.04
Threshold	0.31 ± 0.07	0.90 ± 0.06

We report the absolute value of the weight associated to each feature in the scoring function as determined by SVM and TSVM, together with the threshold that defines the decision boundary.

ISSN: 1471-2105