TABLE 1.
Summary of kinetic parameters for the removal of dCMP or ddCMP from either correctly paired or frayed DNA with and without dNTPsa
| Reaction mixture contents | High rate (s−1) | High-rate amplitude (nM) | Low rate (s−1) | Low-rate amplitude (nM) |
|---|---|---|---|---|
| dCMP and correctly paired DNA | 0.86 ± 0.35 | 21 ± 3 | 0.016 ± 0.004 | 70 ± 3 |
| dCMP and frayed DNA | 1.6 ± 0.5 | 60 ± 10 | 0.1 ± 0.07 | 25 ± 10 |
| ddCMP and correctly paired DNA | (3 ± 0.4) × 10−4 | 85 ± 3 | ||
| ddCMP and frayed DNA | (4.4 ± 0.5) × 10−3 | 88 ± 2 | ||
| ddCMP, correctly paired DNA, and dNTPs | (8 ± 0.7) × 10−5 | 90 ± 0.5 | ||
| ddCMP, frayed DNA, and dNTPs | (6.3 ± 0.3) × 10−3 | 91 ± 2 |
a
Rates of removal of the natural nucleotide, dCMP, and the nucleoside analog, ddCMP, from either correctly paired or frayed DNA substrates (denoted in the left-hand column) are shown. In two experiments, 100 μM dNTPs were added, and this addition is also denoted in the left-hand column. There are two rates given for the removal of dCMP because excision occurred in a biphasic manner, while the removal of ddCMP was monophasic.