Figure 1.
Three-dimensional analysis of the MYC NHE III1 G41–4 structure and clamp-mediated recognition. (A) Computer modelling of the G4 structure identified in supercoiled DNA (46) examined the distance between the first (16.69 Å, yellow), second (20.05 Å, white) or third (30.7 Å, light blue) proximal bases. (B) G4 and iM offset in supercoiled DNA (46) mediates varying length unpaired G4 flanking regions that were used to (C) design clamps to recognize and bind the MYC G4. (D) EMSA analysis of clamp binding (0.01−10 μM) to the MYC WT (Pu46) sequence highlighted greater recognition with shorter linkers. The best binding occurs with the 5′- and 3′- complementary sequences linked by 18 Å.