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. 2021 Jun 16;49(12):7122–7138. doi: 10.1093/nar/gkab462

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© The Author(s) 2021. Published by Oxford University Press on behalf of Nucleic Acids Research.

This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com

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Figure 5. — NMIA chemical probing of the DB RNA. (A) Secondary structure of the DONGV DB RNA in the form observed in the crystal structure (dimer form) compared with the modeled form. NMIA reactivity of the wild-type DB sequence is color-coded (red is high reactivity, white is low reactivity). (B) NMIA reactivity of the DENV-2 DB plotted on the putative secondary structure based on homology to DONGV. (C) NMIA reactivity of pseudoknot mutant RNAs (PK_mut1 and PK_mut2) plotted on the modeled RNA secondary structure. The mutations in PK_mut1 and PK_mut2 were combined to generate compensatory base pairing (PK_comp).