Table 2.
rms and distance deviations between the 8-oxoG structure and the structure of the 70-kDa form of human topoisomerase I in noncovalent complex with DNA
| Deviation | Residue(s) | rmsd/distance, Å |
|---|---|---|
| rmsd | ||
| All nonsolvent atoms | 1.7 | |
| All protein atoms | 1.8 | |
| CAP protein atoms | 202–434 | 1.8 |
| CAT protein atoms | 435–633 | 1.3 |
| Linker protein atoms | 641–712 | 3.1 |
| C-term protein atoms | 713–765 | 1.4 |
| All DNA atoms | 0.87 | |
| P positions | 0.86 | |
| Distance | ||
| Active site residues | Tyr-723F (CZ) | 7.4 |
| Arg-488 (NH1) | 1.2 | |
| Arg-590 | Not observed | |
| Lys-532 (NZ) | 1.3 | |
| His-632 (CE1) | 1.3 |
rmsd, rms deviation. Protein Data Bank ID code (6).