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. 2014 Jun;20(6):782–791. doi: 10.1261/rna.043711.113

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© 2014 Eichhorn and Al-Hashimi; Published by Cold Spring Harbor Laboratory Press for the RNA Society

This article is distributed exclusively by the RNA Society for the first 12 months after the full-issue publication date (see http://rnajournal.cshlp.org/site/misc/terms.xhtml). After 12 months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.

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FIGURE 2. — ssRNA–helix junction stacking interactions and comparison to a preQ₁ riboswitch aptamer domain. (A) Comparison of 2D ¹H-¹³C HSQC spectra (C6H6 and C8H8) for E-SS (black) and E-SS^short (green) allows assignment of ssRNA–helix junction residues. (B) 2D ¹H-¹H NOESY spectra of E-SS^short show NOE connectivities between the terminal G1-C14 base pair and ssRNA–helix junction, indicating ssRNA residues stack on the helix. (C) Comparison of 2D ¹H-¹³C HSQC spectra (aromatic C6H6 and C8H8 and ribose C1′H1′) of E-SS (black) to Bsu preQ₁-I riboswitch in the absence (cyan) and presence (purple) of preQ₁ ligand. Additional adenine resonances that were unaccounted for are indicated using an asterisk.