Table 1.
Comparison of the alignments of difficult structures as cited in Fischer et al. (1996) and Shindyalov and Bourne (1998) by different methods
| PDB code | PDB code | TOPOFIT | Dali | CE |
| 1fxi:A | 1ubq:_ | 55/1.6 | 60/2.6 | 64/3.8 |
| 1ten:_ | 3hhr:B | 81/1.4 | 86/2.0 | 87/1.9 |
| 3hla:B | 2rhe:_ | 47/1.6 | 70/3.2 | 82/3.6 |
| 2aza:A | 1paz:_ | 72/1.7 | 81/2.5 | 85/2.9 |
| 1cew:I | 1mol:A | 73/1.6 | 81/2.3 | 74/2.1 |
| 1cid:_ | 2rhe:_ | 69/1.5 | 97/3.2 | 96/3.4 |
| 1crl:_ | 1ede:_ | 143/1.9 | 211/3.5 | 219/3.8 |
| 2sim:_ | 1nsb:A | 207/2.0 | 291/3.3 | 295/3.2 |
| 1bge:B | 2gmf:A | 68/1.7 | 95/3.2 | 107/4.0 |
| 1tie:_ | 4fgf:_ | 88/1.6 | 114/3.1 | 128/3.2 |
The data for DALI and CE alignments were obtained from the publicly available databases. In cases when compared structures were not present in the databases, Web accessible DALI and CE services were used to compare structures. Structures are identified by their PDB code and chain. The format of the superimposition results is “Ne/RMSD.”