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NMR solution structure of the 4:1 distamycin A/[d(TGGGGT)]4 complex

Overview

The complex between distamycin A and the parallel DNA quadruplex, [d(TGGGGT)]4 has been studied by 1H NMR spectroscopy and isothermal, titration calorimetry (ITC). To unambiguously assert that distamycin A, interacts with the grooves of the quadruplex [d(TGGGGT)]4, we have, analyzed the NMR titration profile of a modified quadruplex, namely, [d(TGGMeGGT)]4, and we have applied the recently developed differential, frequency-saturation transfer difference (DF-STD) method, for assessing, the ligand-DNA binding mode. The three-dimensional structure of the 4:1, distamycin A/[d(TGGGGT)]4 complex has been determined by an in-depth NMR, study followed by dynamics and mechanics calculations. All results, unequivocally indicate that distamycin molecules interact with, [d(TGGGGT)]4 in a 4:1 binding mode, with two antiparallel distamycin, dimers that bind simultaneously two opposite grooves of the quadruplex., The affinity between distamycin A and [d(TGGGGT)]4 enhances (, approximately 10-fold) when the ratio of distamycin A to the quadruplex is, increased. In this paper we report the first three-dimensional structure, of a groove-binder molecule complexed to a DNA quadruplex structure.

About this Structure

2JT7 is a Single protein structure of sequence from [1] with as ligand. Full crystallographic information is available from OCA.

Reference

Structural and thermodynamic studies of the interaction of distamycin A with the parallel quadruplex structure [d(TGGGGT)]4., Martino L, Virno A, Pagano B, Virgilio A, Di Micco S, Galeone A, Giancola C, Bifulco G, Mayol L, Randazzo A, J Am Chem Soc. 2007 Dec 26;129(51):16048-56. Epub 2007 Dec 4. PMID:18052170

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