Two-dimensional nuclear Overhauser enhancement investigation of the solution structure and dynamics of the DNA octamer [d(GGTATACC)]2
- 1 October 1985
- journal article
- research article
- Published by Wiley in European Journal of Biochemistry
- Vol. 152 (1), 157-166
- https://doi.org/10.1111/j.1432-1033.1985.tb09176.x
Abstract
The resonances of nearly all 70 of the non-exchangeable protons of the duplex [d(GGTATACC)]2 in aqueous solution are assigned by proton two-dimensional nuclear Overhauser enhancement (2D NOE) spectra obtained in pure absorption phase at 500 MHz. Experimental and theoretical 2D NOE spectra are compared at each mixing time (100, 175, 250 and 400 ms) using two B-DNA structures: a standard B-form and an energy-minimized form. The GG and CC ends of the octamer duplex are well represented by the regular B-DNA structure. But large discrepancies from these models are observed for the ''TATA'' box. All 2D NOE data are consistent with nanosecond correlation times, as indicated by non-selective proton spin-lattice relaxation times, but small variations in the correlation time are observed, suggesting that there are some local differences in mobility within the octamer duplex structure in solution.This publication has 29 references indexed in Scilit:
- Sequence-specific recognition of DNA: assignment of nonexchangeable proton resonances in the consensus Pribnow promoter DNA sequence by two-dimensional NMRBiochemistry, 1984
- Sequential resonance assignments in proton NMR spectra of oligonucleotides by two-dimensional NMR spectroscopyBiochemistry, 1984
- Sequence-dependent conformation of an A-DNA double helixJournal of Molecular Biology, 1983
- Base sequence and helix structure variation in B and A DNAJournal of Molecular Biology, 1983
- Sequential resonance assignments in DNA proton NMR spectra by two-dimensional NOE spectroscopyJournal of the American Chemical Society, 1983
- Mechanics of sequence-dependent stacking of bases in B-DNAJournal of Molecular Biology, 1982
- Molecular structure of r(GCG)d(TATACGC): a DNA–RNA hybrid helix joined to double helical DNANature, 1982
- Use of two-dimensional NMR in the study of a double-stranded DNA decamerJournal of the American Chemical Society, 1982
- Molecular structure of the octamer d(G-G-C-C-G-G-C-C): modified A-DNA.Proceedings of the National Academy of Sciences, 1982
- Structure of a B-DNA dodecamerJournal of Molecular Biology, 1981