Table 10 Comparison between our structural alphabet (used in SA-FAST) and those of Yang & Tung (used in 3D-BLAST) and de Brevern et al. (converted by PBE-T, a facility associated with PBE-align) for describing motifs found by MEME within the EGF family
From: Protein structure search and local structure characterization
| Â | Â | Our SA | Yang & Tung's | de Brevern et al.'s | |||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Sub-domain Type | A | B | C | A | B | C | A | B | C | ||||||||||
EGF proteins | No.a | Hitsb | Covc | Hits | Cov | Hits | Cov | Hits | Cov | Hits | Cov | Hits | Cov | Hits | Cov | Hits | Cov | Hits | Cov |
Type 1 | 24 | 23 | 95.8 | 22 | 91.7 | 23 | 95.8 | 11 | 45.8 | 21 | 87.5 | 19 | 79.2 | 18 | 75.0 | 14 | 58.3 | 18 | 75.0 |
Type 2 | 74 | 73 | 98.6 | 71 | 95.9 | 74 | 100.0 | 62 | 83.8 | 73 | 98.6 | 60 | 81.1 | 68 | 91.9 | 62 | 83.8 | 70 | 94.6 |
Type 3 | 117 | 116 | 99.1 | 106 | 90.6 | 61 | 52.1 | 54 | 46.2 | 102 | 87.2 | 25 | 21.4 | 109 | 93.2 | 112 | 95.7 | 48 | 41.0 |
Others | 12 | 12 | 100.0 | 11 | 91.7 | 11 | 91.7 | 9 | 75.0 | 11 | 91.7 | 9 | 75.0 | 12 | 100.0 | 11 | 91.7 | 9 | 75.0 |
All | 227 | 224 | 98.6 | 210 | 92.5 | 169 | 74.4 | 136 | 59.9 | 207 | 91.2 | 113 | 49.8 | 207 | 91.2 | 199 | 87.7 | 145 | 63.9 |