Fig. 2: Analysis of RbFox affinity distribution with quantitative binding models. | Nature Communications

Fig. 2: Analysis of RbFox affinity distribution with quantitative binding models.

From: Two distinct binding modes provide the RNA-binding protein RbFox with extraordinary sequence specificity

Fig. 2

a Relative affinities (KA,rel) for selected 5-mer RNA variants, indicated on the left. 48 KA,rel values correspond to all 5-mer with 7 randomized nucleotides (vertical line: median; box: variability through lower quartile and upper quartile; whiskers: variability outside the lower and upper quartiles). b Correlation between experimental KA,rel values for each 5-mer (median value, panel a) and values calculated with the Position Weight Matrix (PWM) binding model (triangle: consensus 5-mer; line: diagonal, y = x; R2: correlation coefficient). c Linear coefficients for each nucleotide position calculated with the PWM binding model (negative values: destabilization). d Correlation between experimental KA,rel values for each 5-mer (median value, panel a) with values calculated with the Pairwise Coupling (PWC) binding model (triangle: consensus 5-mer; line: diagonal, y = x; R2: correlation coefficient). e Linear coefficients for each pairwise coupling between all nucleotides calculated with the PWC binding model (black frames: couplings in consensus 5-mer). Source data are provided as a Source Data file.

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