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Map of distamycin, netropsin, and actinomycin binding sites on heterogeneous DNA: DNA cleavage-inhibition patterns with methidiumpropyl-EDTA.Fe(II).
Open accessAbstract
We report a direct technique for determining the binding sites of small molecules on naturally occurring heterogeneous DNA. Methidiumpropyl-EDTA.Fe(II) [MPE.Fe(II) cleaves double helical DNA with low sequence specificity. Using a combination of MPE.Fe(II) cleavage of drug-protected DNA fragments and Maxam-Gilbert gel methods of sequence analysis, we have determined the preferred binding sites on a Rsa I-EcoRI restriction fragment from pBR322 for the intercalator actinomycin D and the minor groove binders netropsin and distamycin A. Netropsin and distamycin A gave identical DNA cleavage-inhibition patterns and bound preferentially to A+T-rich regions with a minimal protected site of four base pairs. We were able to observe the effect of increasing concentration on site selection by netropsin and distamycin A. Actinomycin D afforded a completely different cleavage-inhibition pattern, with 4- to 16-base-pair-long protected regions centered around one or more G.C base pairs.
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Cited by
Carbon—Hydrogen Bonds of DNA Sugar Units as Targets for Chemical Nucleases and Drugs
Pratviel, G., Bernadou, J., & Meunier, B. (1995) · Angewandte Chemie International Edition in English · doi:10.1002/anie.199507461 · Cited by 422
A Fluorescent Intercalator Displacement Assay for Establishing DNA Binding Selectivity and Affinity
Tse, W. C., & Boger, D. L. (2004) · Accounts of Chemical Research · doi:10.1021/ar030113y · Cited by 288
Bailly, C., & Chaires, J. B. (1998) · Bioconjugate Chemistry · doi:10.1021/bc980008m · Cited by 254
Echinomycin Binding Sites on DNA
Van Dyke, M. M., & Dervan, P. B. (1984) · Science · doi:10.1126/science.6089341 · Cited by 218
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Metadata
- Authors
- Van Dyke, M. W., Hertzberg, R. P., & Dervan, P. B.
- Venue
- Proceedings of the National Academy of Sciences
- Published
- 1982-09
- Volume
- 79
- Issue
- 18
- Pages
- 5470-5474
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- OpenAlex
- W2165090578
- Cited by
- 328
- References
- 0
- FWCI
- 5.73
- Type
- journal article
- Language
- en
- Open access
- bronze
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- CoChat. (2026). Citation check: Map of distamycin, netropsin, and actinomycin binding sites on heterogeneous DNA: DNA cleavage-inhibition patterns with methidiumpropyl-EDTA.Fe(II). https://app.cochat.ai/papers/10.1073/pnas.79.18.5470
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- Van Dyke, M. W., Hertzberg, R. P., & Dervan, P. B. (1982). Map of distamycin, netropsin, and actinomycin binding sites on heterogeneous DNA: DNA cleavage-inhibition patterns with methidiumpropyl-EDTA.Fe(II). Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.79.18.5470
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