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Antiparallel side-by-side dimeric motif for sequence-specific recognition in the minor groove of DNA by the designed peptide 1-methylimidazole-2-carboxamide netropsin.
Open accessAbstract
The designed peptide 1-methylimidazole-2-carboxamide netropsin (2-ImN) binds specifically to the sequence 5'-TGACT-3'. Direct evidence from NMR spectroscopy is presented that this synthetic ligand binds DNA as a 2:1 complex, which reveals that the structure is an antiparallel dimer in the minor groove of DNA. This is in contrast to the 1:1 complexes usually seen with most crescent-shaped minor groove binding molecules targeted toward A+T-rich tracts but reminiscent of a dimeric motif found for distamycin at high concentrations. These results suggest that sequence-dependent groove width may play an important role in allowing an expanded set of DNA binding motifs for synthetic peptides.
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Citations
Cited by
Solid Phase Synthesis of Polyamides Containing Imidazole and Pyrrole Amino Acids
Baird, E. E., & Dervan, P. B. (1996) · Journal of the American Chemical Society · doi:10.1021/ja960720z · Cited by 360
Self-citationA 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
DNA‐Binding Small Molecules as Inhibitors of Transcription Factors
Leung, C., Chan, D. S., Ma, V. P., & Ma, D. (2013) · Medicinal Research Reviews · doi:10.1002/med.21266 · Cited by 58
Metadata
- Authors
- Mrksich, M., Wade, W. S., Dwyer, T. J., Geierstanger, B. H., Wemmer, D. E., & Dervan, P. B.
- Venue
- Proceedings of the National Academy of Sciences
- Published
- 1992-08-15
- Volume
- 89
- Issue
- 16
- Pages
- 7586-7590
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- OpenAlex
- W2163699104
- Cited by
- 184
- References
- 0
- FWCI
- 2.67
- Type
- journal article
- Language
- en
- Open access
- green
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- CoChat. (2026). Citation check: Antiparallel side-by-side dimeric motif for sequence-specific recognition in the minor groove of DNA by the designed peptide 1-methylimidazole-2-carboxamide netropsin. https://app.cochat.ai/papers/10.1073/pnas.89.16.7586
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- Mrksich, M., Wade, W. S., Dwyer, T. J., Geierstanger, B. H., Wemmer, D. E., & Dervan, P. B. (1992). Antiparallel side-by-side dimeric motif for sequence-specific recognition in the minor groove of DNA by the designed peptide 1-methylimidazole-2-carboxamide netropsin. Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.89.16.7586
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
