Widespread transient Hoogsteen base pairs in canonical duplex DNA with variable energetics View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2014-12

AUTHORS

Heidi S. Alvey, Federico L. Gottardo, Evgenia N. Nikolova, Hashim M. Al-Hashimi

ABSTRACT

Hoogsteen (HG) base pairing involves a 180° rotation of the purine base relative to Watson-Crick (WC) base pairing within DNA duplexes, creating alternative DNA conformations that can play roles in recognition, damage induction and replication. Here, using nuclear magnetic resonance R1ρ relaxation dispersion, we show that transient HG base pairs occur across more diverse sequence and positional contexts than previously anticipated. We observe sequence-specific variations in HG base pair energetic stabilities that are comparable with variations in WC base pair stability, with HG base pairs being more abundant for energetically less favourable WC base pairs. Our results suggest that the variations in HG stabilities and rates of formation are dominated by variations in WC base pair stability, suggesting a late transition state for the WC-to-HG conformational switch. The occurrence of sequence and position-dependent HG base pairs provide a new potential mechanism for achieving sequence-dependent DNA transactions. More... »

PAGES

4786

Identifiers

URI

http://scigraph.springernature.com/pub.10.1038/ncomms5786

DOI

http://dx.doi.org/10.1038/ncomms5786

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1020127840

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/25185517


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