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. Author manuscript; available in PMC: 2021 Jan 26.
Published in final edited form as: J Am Chem Soc. 2020 Jun 16;142(25):11165–11172. doi: 10.1021/jacs.0c03591

Figure 5.

Figure 5.

Comparison of the DNA topologies in different sequence context associated with ligand binding in four-way junction like structures. (a) Intercalation of Z1 to T:T mismatches in CTG repeat DNA resulted in U-shaped head to head four way junctions (4WJs) like topology. (b) hydroxymethyl-trimethylpsoralen (HMT) induces a Holliday junction (HJ) formation by cross-linking the thymine bases to cause stacked-X topology. (c) Binding of platinum complex [Pt(H2bapbpy)]-(PF6)2 to non-continuous pseudo duplexes causes cytosine base flipping to generate a pseudo-4WJ like crossover topology. (d) A bis(9-aminoacridine-4-carboxamide) ligand selectively recognizes the antiparallel stacked-X shaped Holliday junctions (HJ). The lower figure shows a schematic representation of each DNA topology due to different ligand binding. The respective PDB IDs for each structure are given in bold, red letters.