Interactions of chromomycin A3 and mithramycin with the sequence d(TAGCTAGCTA)2.
Anti-cancer antibiotics, chromomycin A3 (CHR) and mithramycin (MTR) inhibit DNA directed RNA synthesis in vivo by binding reversibly to template DNA in the minor groove with GC base specificity, in the presence of divalent cations like Mg2+. Under physiological conditions, (drug)2Mg2+ complexes formed by the antibiotics are the potential DNA binding ligands. Structures of CHR and MTR differ in their saccharide residues. Scrutiny of the DNA binding properties reveal significant differences in their sequence selectivity, orientation and stoichiometry of binding. Here, we have analyzed binding and thermodynamic parameters for the interaction of the antibiotics with a model oligonucleotide sequence, d(TAGCTAGCTA)2 to understand the role of sugars. The oligomer contains two potential binding sites (GpC) for the ligands. The study illustrates that the drugs bind differently to the sequence. (MTR)2Mg2+ binds to both sites whereas (CHR)2Mg2+ binds to a single site. UV melting profiles for the decanucleotide saturated with the ligands show that MTR bound oligomer is highly stabilized and melts symmetrically. In contrast, with CHR, loss of symmetry in the oligomer following its association with a single (CHR)2Mg2+ complex molecule leads to a biphasic melting curve. Results have been interpreted in the light of saccharide dependent differences in ligand flexibility between the two antibiotics.
Chakrabarti
S
S
Biophysics Division, Saha Institute of Nuclear Physics, 37, Belgachhia Road, Calcutta 700 037, India.
Dasgupta
D
D
D001665:Binding Sites; D014128:Chromomycin A3 / Q000737:chemistry* / Q000378:metabolism; D004247:DNA / Q000378:metabolism*; D007700:Kinetics; D008024:Ligands; D008274:Magnesium / Q000494:pharmacology; D008956:Models, Chemical; D009690:Nucleic Acid Conformation; D019384:Nucleic Acid Synthesis Inhibitors / Q000737:chemistry* / Q000378:metabolism; D008926:Plicamycin / Q000737:chemistry* / Q000378:metabolism; D011485:Protein Binding; D012313:RNA / Q000378:metabolism*; D013053:Spectrophotometry; D013696:Temperature; D013816:Thermodynamics; D014466:Ultraviolet Rays
D008024:Ligands; D019384:Nucleic Acid Synthesis Inhibitors; D012313:RNA; D004247:DNA; D014128:Chromomycin A3; D008274:Magnesium; D008926:Plicamycin