Table 3.
Reference-dependent (Ref-dep) and reference-independent (Ref-ind) alignment accuracy on the very large benchmark Set180K
| TM-score | Ref-dependent |
Ref-independentTM |
||
|---|---|---|---|---|
| HHalign (%) | Our work (%) | HHalign | Our work | |
| 0.80–1.00 | 83 | 84 | 0.78 | 0.79 |
| 0.65–0.80 | 60 | 62 | 0.52 | 0.56 |
| 0.40–0.65 | 32 | 35 | 0.30 | 0.34 |
| 0.25–0.40 | 11 | 19 | 0.16 | 0.20 |
Note: Reference-independent alignment accuracy is measured by TM-score. The protein pairs are divided into four groups depending on their structure similarity measured by TM-score.