FIGURE 9.

Summary of PPR10's nucleotide preferences within the atpH binding site. Every nucleotide was queried by both gel mobility shift and bind-n-seq with the exception of nucleotides 7, 8, and 9, for which bind-n-seq data are not available. The protein–RNA contacts observed in a PPR10–psaJ crystal structure (Yin et al. 2013) are illustrated to the left, with modular contacts in dashed boxes and nucleotides that make nonmodular contacts marked with asterisks. Modular interactions that can be inferred from data presented here are marked with boxes to the right. Nucleotide positions in the atpH sequence are shaded to reflect the degree to which PPR10 binding is affected by the nucleotide identity at that position. Darker shading indicates increased nucleotide selectivity.