Predicted secondary structures and design of the fragments for NMR measurements. Predicted secondary structures of RNA sequences without additional G residues are shown. (A) The predicted secondary structure of tj-1–100. (B) The lowest-energy (left) and second lowest-energy (right) structures of the 5′ half (tj-1–50). Colors correspond to Figure 1B. The U23 residues are indicated by orange circles. Stem–loops predicted in the 5′-half were indicated as SL1, SL2, SL3, and SL2′. (C) Design of the fragments for NMR measurements. Colored bars correspond to Figure 1B. Additional G residues added for the in vitro transcription reaction are indicated by lower letters. The fragments without additional G residues were prepared by chemical synthesis.
