Sequence dependence of hydrogen exchange kinetics in DNA duplexes at the individual base pair level in solution.
- 1 April 1983
- journal article
- research article
- Published by Proceedings of the National Academy of Sciences in Proceedings of the National Academy of Sciences
- Vol. 80 (8) , 2184-2188
- https://doi.org/10.1073/pnas.80.8.2184
Abstract
The kinetics for H exchange at individual base pairs in self-complementary deoxydodecanucleotide duplexes were estimated from NMR saturation recovery measurements on the resolved imino protons as a function of temperature. The imino protons of dA.cntdot.dT base pairs in the center of the fully alternating d(C-G-C-G-T-A-T-A-C-G-C-G) duplex exchange a factor of 2- to 3-fold faster than the corresponding protons at the same positions in the partially alternating d(C-G-C-G-A-A-T-T-C-G-C-G) duplex. These exchange parameters are a direct measure of the rate constants for transient opening of individual dA.cntdot.dT base pairs in the dodecanucleotide duplexes and demonstrate faster opening kinetics for the TATA box region compared to the related AATT segment.Keywords
This publication has 25 references indexed in Scilit:
- Kinetics for exchange of the imino protons of the d(C-G-C-G-A-A-T-T-C-G-C-G) double helix in complexes with the antibiotics netropsin and/or actinomycinBiochemistry, 1983
- Kinetics for exchange of imino protons in the d(C-G-C-G-A-A-T-T-C-G-C-G) double helix and in two similar helices that contain a G.cntdot.T base pair, d(C-G-T-G-A-A-T-T-C-G-C-G), and an extra adenine, d(C-G-C-A-G-A-A-T-T-C-G-C-G)Biochemistry, 1982
- Kinetics for exchange of imino protons in deoxyribonucleic acid, ribonucleic acid, and hybrid oligonucleotide helixesBiochemistry, 1982
- DNA Conformation, Dynamics, and Interactions in SolutionScience, 1982
- The Anatomy of A-, B-, and Z-DNAScience, 1982
- Direct assignment of the dihydrouridine-helix imino proton resonances in transfer RNA NMR spectra by means of the nuclear Overhauser effectBiochemistry, 1982
- Premelting and melting transitions in the d(CGCGAATTCGCG) self-complementary duplex in solutionBiochemistry, 1982
- Helix-coil dynamics in RNA: The amino acid acceptor helix of Escherichia coli phenylalanine transfer RNAJournal of Molecular Biology, 1980
- Base-pair opening and closing reactions in the double helixJournal of Molecular Biology, 1979
- Open states in native polynucleotides: II. Hydrogen-exchange study of cytosine-containing double helicesJournal of Molecular Biology, 1975