Model of the truncated forms of sRNAs Pab21 and Pab91 obtained by molecular modeling.

<p>(<b>A</b>) Stereoview of the two RNA hairpin models Pab21P₁ and Pab91P₁. The two RNA models are displayed using the more representative conformation (corresponding to the frame extracted from the MD trajectory which best represents the average conformation during the simulation). Pab21P₁ (red) and Pab91P₁ (blue) are superimposed based on the coordinates of the atoms from the phosphodiester backbone. (<b>B</b>) Average buckle versus time of the two RNA hairpin models. The plotted values are calculated by averaging the buckle on the base-pairs of helix P1 (the first base-pair of P1 is not considered in the calculations). The plots are annotated by indication of the average values of the buckle during the simulation between Pab21P₁ (red) and Pab91P₁ (blue). The histograms are also annotated by indication of the median values. (<b>C</b>) Average bending versus time of the two RNA hairpin models. The plotted values are calculated by averaging the bending on the nine base-pairs of P1. The plots are annotated by indication of the average values of the bent during the simulation between Pab21P₁ (red) and Pab91P₁ (blue). The histograms are also annotated by indication of the median values.