Table 2.
Family, superfamily and fold recognition rates of different programs on the Lindahl benchmark set
| Method | Family (%) |
Superfamily (%) |
Fold (%) |
|||
|---|---|---|---|---|---|---|
| First | Top 5 | First | Top 5 | First | Top 5 | |
| FFAS | 82.3 | 87.7 | 60.4 | 67.5 | 15.0 | 28.3 |
| HHpred | 82.9 | 87.1 | 58.8 | 70.0 | 25.2 | 39.4 |
| SPARKS-X | 84.1 | 90.3 | 59.0 | 76.3 | 45.2 | 67.0 |
| FFAS-3D | 84.9 | 91.2 | 66.6 | 79.5 | 35.8 | 55.1 |
| FFAS-3Dp | 86.3 | 91.9 | 65.7 | 77.0 | 33.0 | 53.9 |
| FFAS-3Dr | 87.2 | 93.9 | 71.0 | 81.8 | 42.7 | 63.9 |
Note: In each level, the program succeeds in recognizing the target if the structure with the same SCOP family, superfamily or fold classification is ranked as the first or as one of the top 5.
FFAS-3Dp, using the matching of predicted structural features in the scoring function; FFAS-3Dr, using the matching of real structural features in the scoring function.