Evidence of reciprocal tertiary interactions between conserved motifs involved in organizing RNA structure essential for internal initiation of translation

Enzymatic and chemical probing of stem 3 RNA. (A) [γ-³²P]ATP-5′-end-labeled RNA was incubated with RNase T1 and analyzed on denaturing gel electrophoresis. (B) DMS and T2 treatment followed by primer extension analysis. (C) Schematic representation of stem 3 secondary structure. A thin line between residues G150 and U228 depicts the junction of the left and right arms in the truncated version of the central domain, stem 3. Symbols used are as in Figures 2, 4, and 6.