Figure 2: Phosphorothioate interference mapping assay and extended equilibrium simulations together identify potential inner-sphere Mg²⁺ sites.

Phosphorothioate interference mapping experiments show positions where interference is high. Capillary electrophoresis traces of selected and unselected RNA included with ATPαS. To fold the RNA various concentrations of SAM were taken and a rescue operation is also performed with 1 mM Mn²⁺ along with 1 mM Mg²⁺ keeping minimum SAM concentration (10μM). Electropherograms for UTPαS interference assay are shown elsewhere.⁶ Traces are integrated and the areas are normalized to peaks that display no selection. As the concentration of SAM increases, the trace population of phosphorothioate returns to normal.