Solution structure of poly(dA-dT).poly(dA-dT) in low and high salt: a 500 MHz 1H NMR study using one-dimensional NOE

Journal of Biomolecular Structure & Dynamics
M H SarmaR H Sarma

Abstract

CD spectra of poly(dA-dT).poly(dA-dT) in low salt (10-100 mM NaCl) and high salt (4-6 M CsF) are different i.e. 275 nm band gets inverted in going from low to high salt (Vorhickova et. al., J. Mol. Biol. 166, 85, 1983). However, from CD spectra alone it is not possible to decipher any structural differences that might exist between the low and high salt forms of poly(dA-dT).poly(dA-dT). Hence, we took recourse to high resolution NMR spectroscopy to understand the structural properties of poly(dA-dT).poly(dA-dT) in low and high salt. A detailed analysis of shielding constants and extensive use of NOE studies under minimum spin diffusion conditions using C(8)-deuterated poly(dA-dT).poly(dA-dT) enabled us to come up with the following conclusions (i) base-pairing is Watson-Crick under low and high salt conditions. (ii) under both the conditions of salt the experimental data can be explained in terms of an equilibrium blend of right and left-handed B-DNA duplexes with the left-handed form 70% and the right-handed 30%. In a 400 base pairs long poly(dA-dT).poly(dA-dT) (as used in this study), equilibrium between right and left-handed helices can also mean the existence of both helical domains in the same molecule with fast interchang...Continue Reading

References

Jan 1, 1970·Progress in Nucleic Acid Research and Molecular Biology·D Voet, A Rich
Jan 1, 1969·Biopolymers·F Doppler-Bernardi, G Felsenfeld
May 5, 1983·Journal of Molecular Biology·M VorlíckováV Sklenár
Oct 1, 1980·Proceedings of the National Academy of Sciences of the United States of America·R P EricksonA Salkeld

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Citations

Jun 25, 1985·Nucleic Acids Research·J A Taboury, E Taillandier
Dec 1, 1988·European Journal of Biochemistry·F J Van de Ven, C W Hilbers
Jun 1, 1985·Biopolymers·G J Thomas, J M Benevides
Feb 1, 1987·Biopolymers·S AdamE Taillandier
Jun 1, 1985·Journal of Biomolecular Structure & Dynamics·I PanyutinS Mirkin
Apr 1, 1988·Journal of Biomolecular Structure & Dynamics·H Votavová, J Sponar
Dec 1, 1990·Journal of Biomolecular Structure & Dynamics·M H SarmaR H Sarma

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