Fig. 4: Orthogonal fluorescence activation of DFHO by the Wobble Beetroot mutant. | Nature Communications

Fig. 4: Orthogonal fluorescence activation of DFHO by the Wobble Beetroot mutant.

From: Co-crystal structures of the fluorogenic aptamer Beetroot show that close homology may not predict similar RNA architecture

Fig. 4

a DFHO fluorescence in the presence of binding-site mutants of Beetroot, normalized to wild-type activated DFHO (mean±s.d., n = 3 – n denotes independent sample replicate). b Cartoon representation of the core of the Wobble Beetroot-DFHO co-crystal structure. The mutated U16•G38 wobble pair is colored red. c View of the Wobble Beetroot binding site with bound DFHO sandwiched between T4 tetrad and the U16•G38 wobble pair. Gray mesh depicts the |Fo | − |Fc| electron density map before building DFHO fluorophore, contoured at 2.0 σ. d Orthogonal view of c the binding site of Wobble Beetroot–DFHO from the direction of P2. e View of the superimposed binding sites of Wobble Beetroot–DFHO (nucleotides in green and ligand in yellow) and Beetroot–DFHO (nucleotides in light translucent green and ligand in gray) from the direction of P2 (base-pair of P2 omitted).

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