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Crystal structure of a pentamidine-oligonucleotide complex: implications for DNA-binding properties
Abstract
The crystal structure of the complex formed between the dodecanucleotide d(CGCGAATTCGCG)2 and the drug pentamidine, which is active against the Pneumocystis carinii pathogen in AIDS patients, has been determined to a resolution of 2.1 A and an R-factor of 19.4%. Analysis of the structure has shown the drug to be bound in the 5'-AATT minor groove region of the duplex, with the amidinium groups H-bonded to adenine N3 atoms in an interstrand manner. The drug molecule adopts an extended conformation, and the immediate binding site spans four base pairs. Structural details of the drug-DNA interactions are discussed, and comparison is made with the dodecamer complex of the structurally similar berenil ligand.
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Cited by
DNA minor-groove recognition by small molecules (up to 2000)
Neidle, S. (2001) · Natural Product Reports · doi:10.1039/a705982e · Cited by 494
Self-citationWilson, W. D., Ratmeyer, L., Zhao, M., Strekowski, L., & Boykin, D. (1993) · Biochemistry · doi:10.1021/bi00066a035 · Cited by 408
Pentamidine reverses the splicing defects associated with myotonic dystrophy
Warf, M. B., Nakamori, M., Matthys, C. M., Thornton, C. A., & Berglund, J. A. (2009) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0903234106 · Cited by 263
In Vitro and In Vivo Antifungal Activities of T-2307, a Novel Arylamidine
Mitsuyama, J., Nomura, N., Hashimoto, K., Yamada, E., Nishikawa, H., Kaeriyama, M., Kimura, A., Todo, Y., & Narita, H. (2008) · Antimicrobial Agents and Chemotherapy · doi:10.1128/aac.01159-07 · Cited by 111
Metadata
- Authors
- Edwards, K. J., Jenkins, T. C., & Neidle, S.
- Venue
- Biochemistry
- Publisher
- American Chemical Society (ACS)
- Published
- 1992-08-11
- Volume
- 31
- Issue
- 31
- Pages
- 7104-7109
- ISSN
- 0006-2960 (ISSN-L)
- 1520-4995
- OpenAlex
- W1999631461
- Cited by
- 175
- References
- 0
- FWCI
- 3.44
- Type
- journal article
- Language
- en
- Open access
- closed
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- Edwards, K. J., Jenkins, T. C., & Neidle, S. (1992). Crystal structure of a pentamidine-oligonucleotide complex: implications for DNA-binding properties. Biochemistry. https://doi.org/10.1021/bi00146a011
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