Fig. 3: The optimal design of the HMSD-based catalyst experiences only moderate competitive product inhibition and achieves high turnover. | Nature Chemistry

Fig. 3: The optimal design of the HMSD-based catalyst experiences only moderate competitive product inhibition and achieves high turnover.

From: Information propagation through enzyme-free catalytic templating of DNA dimerization with weak product inhibition

Fig. 3

a, The reacted monomer concentration [M1L] in a system with 10 nM N3, 10 nM M1L, 1 nM T and an initial non-fluorescent pool of products M1N3 at a range of concentrations \({[{M}_{1}{N}_{3}]}_{0}\). The condition 6t/8h, considered as optimal, is highlighted in red. b, The initial TOF at different \({[{M}_{1}{N}_{3}]}_{0}\) conditions for 6t/8h, 6t/9h and 6t/10h, obtained from the kinetics depicted in a. The symbols are centred on the best fit of the TOF to a single trajectory, with the height indicating a 95% confidence interval on that fit. Although 6t/9h has a higher TOF in the absence of [M1N3], 6t/8h combines rapid growth with a higher resistance to rate reduction at high \({[{M}_{1}{N}_{3}]}_{0}\). c, The turnover of M1L as inferred from fluorescence data, in experiments with 100 nM M1L, 100 nM N3 and variable concentrations of the template \({[{T}_{13}]}_{0}\) (6t/8h). A large proportion of M1L is observed to react, even for a concentration of \({[{T}_{13}]}_{0}\) 400 times lower than the number of monomers, reaching turnovers above 20 products per template. The template-free leak reactions are essentially negligible (0.32 ± 0.06 M−1 s−1) even compared with the lowest template concentration regimes. d, The initial rates of reactions from c and an additional set of replica experiments (Supplementary Note 7.2), as a function of \({[{T}_{13}]}_{0}\). The symbols are centred on the best fit of the rate to a single trajectory, with the error bars giving a 95% confidence interval on that fit. The red line is the linear fit of the system TOF (3.6 ± 0.3 h−1) to the 11 independent kinetic measurements, the red dashed line is the 95% confidence interval of that fit and the black dashed line is the untemplated rate for monomers at 100 nM = 0.012 ± 0.002 nM h−1.

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