Journal of the American Chemical Society, Vol.139, No.12, 4326-4329, 2017
Direct NMR Evidence that Transient Tautomeric and Anionic States in dG center dot dT Form Watson-Crick-like Base Pairs
The replicative and translational machinery utilizes the unique geometry of canonical G-C and A center dot T/U Watson-Crick base pairs to discriminate against DNA and RNA mismatches in order to ensure high fidelity replication, transcription, and translation. There is growing evidence that spontaneous errors occur when mismatches adopt a Watson-Crick-like geometry through tautomerization and/or ionization of the bases. Studies employing NMR relaxation dispersion recently showed that wobble dG center dot dT and rG center dot rU mismatches in DNA and RNA duplexes transiently form tautomeric and anionic species with probabilities (approximate to 0.01-0.40%) that are in concordance with replicative and translational errors. Although computational studies indicate that these exceptionally short-lived and low-abundance species form Watson-Crick-like base pairs, their conformation could not be directly deduced from the experimental data, and alternative pairing geometries could not be ruled out. Here, we report direct NMR evidence that the transient tautomeric and, anionic species form hydrogen-bonded Watson-Crick-like base pairs. A guanine-to-inosine substitution, which selectively knocks out a Watson-Crick-type (G)N2H(2)center dot center dot center dot O2(T) hydrogen bond, significantly destabilized the transient tautomeric and anionic species, as assessed by lack of any detectable chemical exchange by imino nitrogen rotating frame spin relaxation (R-1p) experiments. An N-15 R-1p NMR experiment targeting, the amino nitrogen of guanine (dG-N-2) provides direct evidence for Watson-Crick (G)-N2H2 center dot center dot center dot O-2(T) hydrogen bonding in the transient tautomeric state. The strategy presented in this work can be generally applied to examine hydrogen-bonding patterns in nucleic acid transient states including in other tautomeric and anionic species that are postulated to play roles in replication and translational errors.