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An interlocked dimeric parallel-stranded DNA quadruplex: A potent inhibitor of HIV-1 integrase
Open accessAbstract
We report on the NMR-based solution structure of the 93del d(GGGGTGGGAGGAGGGT) aptamer, a potent nanomolar inhibitor of HIV-1 integrase. This guanine-rich DNA sequence adopts an unusually stable dimeric quadruplex architecture in K + solution. Within each 16-nt monomer subunit, which contains one A·(G·G·G·G) pentad sandwiched between two G·G·G·G tetrads, all G-stretches are parallel, and all guanines are anti with the exception of G1, which is syn . Dimer formation is achieved through mutual pairing of G1 of one monomer, with G2, G6, and G13 of the other monomer, to complete G·G·G·G tetrad formation. There are three single-nucleotide double-chain-reversal loops within each monomer fold, such that the first (T5) and third (A12) loops bridge three G-tetrad layers, whereas the second (A9) loop bridges two G-tetrad layers and participates in A·(G·G·G·G) pentad formation. Results of NMR and of integrase inhibition assays on loop-modified sequences allowed us to propose a strategy toward the potential design of improved HIV-1 integrase inhibitors. Finally, we propose a model, based on molecular docking approaches, for positioning the 93del dimeric DNA quadruplex within a basic channel/canyon formed between subunits of a dimer of dimers of HIV-1 integrase.
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Cited by
Discovery and development of the G-rich oligonucleotide AS1411 as a novel treatment for cancer
Bates, P. J., Laber, D. A., Miller, D. M., Thomas, S. D., & Trent, J. O. (2009) · Experimental and Molecular Pathology · doi:10.1016/j.yexmp.2009.01.004 · Cited by 874
Metadata
- Authors
- Phan, A. T., Kuryavyi, V., Ma, J.-B., Faure, A., Andréola, M.-L., & Patel, D. J.
- Venue
- Proceedings of the National Academy of Sciences
- Published
- 2005-01-06
- Volume
- 102
- Issue
- 3
- Pages
- 634-639
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- OpenAlex
- W1484505342
- Cited by
- 241
- References
- 0
- FWCI
- 5.76
- Type
- journal article
- Language
- en
- Open access
- green
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- Phan, A. T., Kuryavyi, V., Ma, J.-B., Faure, A., Andréola, M.-L., & Patel, D. J. (2005). An interlocked dimeric parallel-stranded DNA quadruplex: A potent inhibitor of HIV-1 integrase. Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.0406278102
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