Download MendeleyStructure of a Stable G-Hairpin.
Gajarsky, M., Zivkovic, M.L., Stadlbauer, P., Pagano, B., Fiala, R., Amato, J., Tomaska, L., Sponer, J., Plavec, J., Trantirek, L.(2017) J Am Chem Soc 139: 3591-3594
- PubMed: 28217994
- DOI: https://doi.org/10.1021/jacs.6b10786
- Primary Citation of Related Structures:
5M1W - PubMed Abstract:
In this study, we report the first atomic resolution structure of a stable G-hairpin formed by a natively occurring DNA sequence. An 11-nt long G-rich DNA oligonucleotide, 5'-d(GTGTGGGTGTG)-3', corresponding to the most abundant sequence motif in irregular telomeric DNA from Saccharomyces cerevisiae (yeast), is demonstrated to adopt a novel type of mixed parallel/antiparallel fold-back DNA structure, which is stabilized by dynamic G:G base pairs that transit between N1-carbonyl symmetric and N1-carbonyl, N7-amino base-pairing arrangements. Although the studied sequence first appears to possess a low capacity for base pairing, it forms a thermodynamically stable structure with a rather complex topology that includes a chain reversal arrangement of the backbone in the center of the continuous G-tract and 3'-to-5' stacking of the terminal residues. The structure reveals previously unknown principles of the folding of G-rich oligonucleotides that could be applied to the prediction of natural and/or the design of artificial recognition DNA elements. The structure also demonstrates that the folding landscapes of short DNA single strands is much more complex than previously assumed.
Organizational Affiliation:
Central European Institute of Technology, Masaryk University , Kamenice 753/5, 62500 Brno, Czech Republic.
