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. 2020 Feb 13;48(6):3366–3378. doi: 10.1093/nar/gkaa083

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© The Author(s) 2020. 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 License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 2. — Structure of the TetR-aptamer complex. (A) Cartoon representation of dimeric TetR (in blue and gray) in complex with the RNA aptamer K1. The N-terminal NBDs of TetR are formed by helices α1 through α3 and the EBDs by helices α4 through α9. The TetR-RNA aptamer interface is framed. (B) Schematic summary of the base pairings within the aptamer as well as of the side chain-specific TetR interactions. Nucleobases in canonical Watson-Crick base pairings are colored white, trans Watson-Crick/Hoogsteen pairings blue and trans sugar-edge/sugar-edge pairings orange. The two non-canonical Watson–Crick/Watson–Crick pairings are shown in gray and the sugar edge/Hoogsteen pair in red. Hydrogen bond interactions between TetR and RNA aptamer are indicated by red arrows and selected π–π-stacking interactions by gray arrows. The two stems P1 and P2 are labeled.