Table 2 Comparing S2A2 matrix with other methods for fold recognition on the Lindahl benchmark
From: (PS)2-v2: template-based protein structure prediction server
Methods | Family (%) | Superfamily (%) | Fold (%) | |||
|---|---|---|---|---|---|---|
| Â | Top 1 | Top 5 | Top 1 | Top 5 | Top 1 | Top 5 |
S2A2 a | 77.1 | 85.1 | 43.8 | 63.1 | 26.5 | 50.8 |
S2A2+PSSM a | 82.2 | 88.8 | 56.7 | 75.6 | 27.1 | 54.5 |
PSI-BLAST | 74.4 | 79.5 | 38.5 | 49.1 | 4.4 | 14.6 |
prof_sim | 80.7 | 86.5 | 50.9 | 61.3 | 22.1 | 39.6 |
RAPTORb | 84.8 | 87.1 | 47.0 | 60.0 | 31.3 | 54.2 |
PROSPECT IIc | 84.1 | 88.2 | 52.6 | 64.8 | 27.7 | 50.3 |
SPARKSd | 81.6 | 88.1 | 52.5 | 69.1 | 24.3 | 47.7 |
FOLDproe | 85.0 | 89.9 | 55.5 | 70.0 | 26.5 | 48.3 |
SP3 f | 81.6 | 86.8 | 55.3 | 67.7 | 28.7 | 47.4 |
SP4 f | 80.9 | 86.3 | 57.8 | 68.9 | 30.8 | 53.6 |