From: Accelerating large-scale protein structure alignments with graphics processing units
Dataset | Methods | RMSD100 | Execution time (s) | Speedup of ppsAlign |
---|---|---|---|---|
D 1 | ppsAlign | 5.7 | 64 | - |
 | CPU-based ppsAlign | 5.7 | 1596 | 24.9 |
 | TM-Align | 5.7 | 2170 | 33.9 |
D 2 | ppsAlign | 5.3 | 41 | - |
 | CPU-based ppsAlign | 5.3 | 899 | 21.9 |
 | TM-Align | 5.3 | 1597 | 39.0 |
Total | ppsAlign | Â | 105 | - |
 | CPU-based ppsAlign |  | 2495 | 23.8 |
 | TM-Align |  | 3767 | 35.9 |