Table 2 Docking results – percent of hits and high quality solutions (in parentheses) – for protein-RNA (p-R), optimized protein-DNA (p-D) and non-specific protein-DNA (n.s.) parameter sets
| Â | Native | Top | Top | All |
|---|---|---|---|---|
Set | minimized | scored | ten | docked |
p-R | 100(90) | 47(42) | 61(53) | 84(70) |
p-D | 100(92) | 55(51) | 75(64) | 86(70) |
n.s. | 98(86) | 34(31) | 44(39) | 73(57) |
p-R | 100(87) | 41(41) | 60(55) | 90(62) |
p-D | 100(97) | 55(55) | 76(76) | 86(86) |
n.s. | 80(47) | 41(38) | 52(41) | 86(69) |