Fig. 3: σ-DNA interactions responsible for −10 element recognition.
From: Structural basis of promoter recognition by Staphylococcus aureus RNA polymerase
A σA2-DNA interactions. Yellow, σ; light blue, nontemplate strand DNA; dark blue, template strand DNA. Left subpanel, ribbon representation; right subpanel, surface representation. B σB2 and σB3 co-recognize the −10 element. Yellow, σ; light blue, nontemplate strand DNA; dark blue, template strand DNA. Left subpanel, ribbon representation; right subpanel, surface representation. C EMSA shows that the substitution of DNA interacting residues impairs σB-RPo formation. Source data are provided as a Source Data file. D Ribogreen transcription assay shows that the substitution of DNA interacting residues impairs σB dependent transcription. Error bars represent mean ± SD of n = 3 experiments. R74A, p < 0.0001; F79A, p < 0.0001; F86A, p < 0.0001; R97A, p < 0.0001; R100A, p < 0.0001; R110A, p < 0.0001. One-way ANOVA. Source data are provided as a Source Data file. E EMSA shows that the mutation of the interacting nucleotides impairs σB-RPo formation. F Ribogreen transcription assay shows that the mutation of the interacting nucleotides impairs σB dependent transcription. Error bars represent mean ± SD of n = 3 experiments. −15C, p < 0.0001; −14C, p = 0.0030; −13C, p < 0.0001; −11T, p < 0.0001. One-way ANOVA. Source data are provided as a Source Data file. G Sequence alignment of S. aureus σA and σB. The DNA interacting residues of σB are indicated by black triangles.
