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Table 1 Function prediction performance using KNN for the gold-standard dataset

From: Cutoff Scanning Matrix (CSM): structural classification and function prediction by protein inter-residue distance patterns

Superfamily Before SVD After SVD ∆Prec. ∆Rec.
  Precision Recall Precision Recall   
Amidohydrolase 0.983 0.983 1.000 1.000 +1.7% +1.7%
Crotonase 0.955 0.953 0.979 0.977 +2.4% +2.4%
Enolase 0.876 0.853 0.971 0.967 +9.5% +11.4%
Haloacid Dehalogenase 0.881 0.925 0.984 0.981 +10.3% +5.6%
Isoprenoid Synthase Type I 1.000 1.000 1.000 1.000 +0.0% +0.0%
Vicinal Oxygen Chelate 1.000 1.000 1.000 1.000 +0.0% +0.0%
All 0.901 0.903 0.991 0.989 +9.0% +8.6%
  1. Prediction performance for the gold-standard dataset using KNN. The experiment was performed in an intra-superfamily fashion, and the classes for prediction represent the enzyme’s families. The precision and recall metrics are weighted averages. Ten-fold cross validation was employed.