FIGURE 3.
Structural probing of the putative TPP-riboswitch from Arabidopsis. (A) Fragmentation pattern of the 128-nucleotide RNA (arrow) of A. thaliana (Fig. 1B ▶), which was generated by incubation in the absence (−) or presence (+) of 100 μM TPP. T1, OH, and NR identify RNAs that were partially digested with RNase T1 (cleaves 3′ to G residues), alkali, or were not reacted, respectively. Reactions were conducted as described previously (Winkler et al. 2002a). (B) Apparent KD for TPP binding by the A. thaliana RNA. Fraction bound was determined by in-line probing as described previously (Nahvi et al. 2002; Winkler et al. 2002a,b).