Table 2.
Ten-fold cross-validated accuracy and coverage given by the two-hidden-layer (ANN2) neural networks for predicting full-contact (|i - j| ≥ 6) and nonlocal contact (|i - j| ≥ 24) maps at different number of top predictions (L, L/2, L/5) are shown for proteins of different structural classes (all α, all β and others) and different lengths (L < 120, 120 ≤ L ≤ 240, and L > 240).
| α | β | Other | L < 120 | 120 ≤ L ≤ 240 | L > 240 | ||
|---|---|---|---|---|---|---|---|
| Number of Proteins | 110 | 52 | 338 | 154 | 214 | 132 | |
| Full Contact Mapsa | |||||||
| (L) | Accu.b | 16.9 | 33.7 | 32.4 | 27.6 | 30.1 | 29.3 |
| Cov.c | 17.1 | 14.4 | 15.9 | 20.1 | 15.2 | 12.5 | |
| (L/2) | Accu.b | 22.0 | 41.8 | 41.8 | 35.1 | 38.4 | 38.2 |
| Cov.c | 10.9 | 8.8 | 10.3 | 13.0 | 9.7 | 8.2 | |
| (L/5) | Accu.b | 29.8 | 51.4 | 52.4 | 44.5 | 48.2 | 48.9 |
| Cov.c | 5.9 | 4.3 | 5.3 | 7.0 | 4.9 | 4.2 | |
|
| |||||||
| Nonlocal C ontact Mapsd | |||||||
| (L) | Accu.b | 9.4 | 14.1 | 17.1 | 13.5 | 16.3 | 15.0 |
| Cov.c | 16.0 | 10.7 | 13.1 | 18.2 | 12.5 | 9.3 | |
| (L/2) | Accu.b | 11.3 | 16.4 | 21.9 | 16.2 | 20.4 | 19.8 |
| Cov.c | 10.3 | 6.3 | 8.3 | 11.5 | 7.8 | 6.1 | |
| (L/5) | Accu.b | 13.8 | 20.4 | 28.2 | 19.7 | 25.5 | 27.1 |
| Cov.c | 5.5 | 3.1 | 4.1 | 5.9 | 3.9 | 3.3 | |
a
All residue-residue contacts with the separation of the sequence positions greater than or equal to 6.
b
Accuracy: fraction of true positives in number of top predictions.
c
Coverage: fraction of true positives in total number of native contacts.
d
Nonlocal residue-residue contacts with the separation of the sequence positions greater than or equal to 24.