Table 2.
Properties of structural models of the cytochrome c/Apaf-1 complex as compared to the crystallographic data on the interactions of cytochrome c with the cytochrome bc 1 complex
| Structure | Solvation energy of the complex formation, kcal/mol | Interface area, as % of the total solvent-accessible surface of cytochrome c |
|---|---|---|
| Apoptosome complex | ||
| 3j2t | 1.4 | 16.0 % |
| cluspro | −4.8 | 23.2 % |
| patchdock | −5.9 | 26.2 % |
| patchdock’ | −6.2 | 32.1 % |
| zdock1 | −14.3 | 28.8 % |
| zdock2 | −4.8 | 30.0 % |
| Cytochrome bc1 complex | ||
| 1kyo crystal | −1.6 | 9.9 % |
| 3cx5 crystal | −1.2 | 9.9 % |