Table 6.
Output values for each method on the identified distant surficial homologs couples illustrated in Figure 2
| Protein couple | a | b | c | d | e | f |
|---|---|---|---|---|---|---|
| 3D-Surfer | 4.26 | 5.26 | 3.87 | 3.37 | 4.02 | 3.57 |
| PANORAMA | 0.0219 | 0.0227 | 0.0217 | 0.0213 | 0.0221 | 0.0222 |
| Shape-DNA | 1.09 | 0.22 | 0.57 | 0.73 | 0.37 | 0.79 |
| VFH | 180.05 | 57.81 | 44.87 | 33.22 | 79.14 | 31.41 |
| CE | 5.75 | 5.54 | 4.76 | 4.94 | 5.36 | 3.35 |
| DeepAlign | 4.46 | 3.21 | 3.55 | 3.43 | 3.24 | 3.51 |
| TM-Align | 0.31 | 0.29 | 0.24 | 0.27 | 0.23 | 0.79 |
| MMLigner | 0.36 | 0 | 0.79 | 0.53 | 0.72 | 0.60 |
| KPax | 0.35 | 0.37 | 0.44 | 0.35 | 0.31 | 0.34 |
| SeqID | 10.11% | 11.23% | 11.26% | 18.42% | 9.85% | 10.14% |
Note: For 3D-Surfer, PANORAMA, Shape-DNA, VFH and 3DZD: the lower the distance, the higher the similarity. TM-Align (TM-score), MMLigner (coverage) and KPAX (M-score) values range from 0 (no similarity) to 1 (ideal similarity). For CE and DeepAlign, the lower the values, the higher the similarity. For SeqID, the higher the percentage, the higher the similarity. Only RMSD (from CE and DeepAlign) values are directly comparable.