Table 2.
Performance of six pairwise structure alignment tools on benchmarks MALIDUP and MALISAM
| Benchmark | Method | Nali | RMSD | TM-score | Total Time (s) |
|---|---|---|---|---|---|
| MALIDUP | DeepAlign ∗ | 85.5 | 2.61 | 0.622 | 10.2 |
| DALI ∗ | 83.5 | 2.65 | 0.600 | 115.3 | |
| MATT ∗ | 82.3 | 2.47 | 0.608 | 63.0 | |
| Formatt ∗ | 70.6 | 2.19 | 0.542 | 85.1 | |
| TM-align ∗ | 87.0 | 2.62 | 0.631 | 6.4 | |
| MADOKA | 91.7 | 3.43 | 0.631 | 1.2 | |
| MALISAM | DeepAlign ∗ | 61.3 | 2.96 | 0.521 | 4.3 |
| DALI ∗ | 61.0 | 3.11 | 0.515 | 47.4 | |
| MATT ∗ | 56.2 | 2.74 | 0.486 | 16.2 | |
| Formatt ∗ | 44.9 | 2.42 | 0.411 | 33.1 | |
| TM-align ∗ | 61.1 | 3.06 | 0.517 | 2.9 | |
| MADOKA | 62.8 | 2.72 | 0.555 | 0.7 |
*These are detailed in [33]