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Table 4 Classification of NA-pairs in strategies 3 and 4 according to the probability estimates

From: Automatic structure classification of small proteins using random forest

Predicted Shared Level Total p < 0.5 p = 0.5 0.5 < p < 0.9 p ≥ 0.9
  Strategy 3
Class 2806 14 130 1235 1427
Fold 29 0 6 9 14
Super-family 2 2 0 0 0
Family 21 0 8 12 1
  Strategy 4
Class 4558 37 162 1917 2442
Fold 55 0 5 37 13
Super-family 3 3 0 0 0
Family 37 0 9 20 8
  1. Following strategies 3 and 4, NA-pairs can be classified as sharing one of the top four SCOP structural levels. A large fraction of NA-pairs are classified to share the same Class in both the strategies. However, further distribution of such pairs according to the probability reflects the classification confidence. The high probability reflects more confidence in the predicted classification.