Solution Study of the NF-κB p50-DNA Complex by UV Laser Protein-DNA Cross-linking¶
Abstract
In this study, we describe a new approach for studying protein-DNA interactions in solution. The approach is based on mapping the UV laser-induced protein-DNA cross-links between the amino acids of the protein and the DNA bases that are in direct contact. The approach was applied for studying the solution structure of the human necrosis factor (NF)-kappaB p50 homodimer bound to a 37 base pair DNA. Several points of contact identical to those observed in the NF-kappaB-DNA crystal structure were found between the two biomolecules. Evidence is provided for the occurrence of two new contact points, one for each DNA strand. These new points of contact are located symmetrically a base apart from the extremity of the binding sequence.
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Independent proofs support covalent attachment of nucleophilic amino acids to guanine radical cation upon one-electron oxidation of oligonucleotides mediated by Type I photosensitizer, flash quench, or biphotonic ionization.
“Other independent proofs that support the covalent attachment of nucleophilic amino acids to Gua •+ upon one-electron oxidation of oligonucleotides mediated by a Type I photosensitizer, the flash quench technique or biphotonic ionization, are available (219-222).”
From Photoinduced Damage to Cellular DNA: Direct and Photosensitized Reactions<sup>†</sup> (2012) · cites this paper as [222]
Cites
Activators and target genes of Rel/NF-κB transcription factors
Pahl, H. L. (1999) · Oncogene · doi:10.1038/sj.onc.1203239 · Cited by 3,727 · see citing works
Activators and Target Genes of Rel/NF-кB Transcription Factors
Loop, T., & Pahl, H. L. (2003) · Springer eBooks · doi:10.1007/978-94-010-0163-2_1 · Cited by 3,179 · see citing works
Baeuerle, P. A., & Baltimore, D. (1996) · Cell · doi:10.1016/s0092-8674(00)81318-5 · Cited by 3,002 · see citing works
Structure of NF-κB p50 homodimer bound to a κB site
Ghosh, G., Duyne, G. D. V., Ghosh, S., & Sigler, P. B. (1995) · Nature · doi:10.1038/373303a0 · Cited by 570 · see citing works
Structure of the NF-κB p50 homodimer bound to DNA
Müller, C. W., Rey, F. A., Sodeoka, M., Verdine, G. L., & Harrison, S. C. (1995) · Nature · doi:10.1038/373311a0 · Cited by 536 · see citing works
Self-citationThe Rel/NF-κB signal transduction pathway: introduction
Gilmore, T. D. (1999) · Oncogene · doi:10.1038/sj.onc.1203237 · Cited by 432 · see citing works
Oxidative damage to DNA: Formation, measurement, and biological significance
Cadet, J., Berger, M., Douki, T., & Ravanat, J. (1997) · Springer eBooks · doi:10.1007/3-540-61992-5_5 · Cited by 431 · see citing works
Self-citationDiverse agents act at multiple levels to inhibit the Rel/NF-κB signal transduction pathway
Epinat, J.-C., & Gilmore, T. D. (1999) · Oncogene · doi:10.1038/sj.onc.1203218 · Cited by 211 · see citing works
Nikogosyan, D. N. (1990) · International Journal of Radiation Biology · doi:10.1080/09553009014552411 · Cited by 155 · see citing works
Mutskov, V. J., Gerber, D., Angelov, D., Ausió, J., Workman, J. L., & Dimitrov, S. I. (1998) · Molecular and Cellular Biology · doi:10.1128/mcb.18.11.6293 · Cited by 144 · see citing works
Self-citationAngelov, D., Spassky, A., Berger, M., & Cadet, J. (1997) · Journal of the American Chemical Society · doi:10.1021/ja971728r · Cited by 135 · see citing works
Self-citationStructure of the human NF‐κB p52 homodimer‐DNA complex at 2.1 Å resolution
Cramer, P., Larson, C. J., Verdine, G. L., & Müller, C. W. (1997) · The EMBO Journal · doi:10.1093/emboj/16.23.7078 · Cited by 132 · see citing works
Self-citationCrosslinking proteins to nucleic acids by ultraviolet laser irradiation
Pashev, I. G., Dimitrov, S. I., & Angelov, D. (1991) · Trends in Biochemical Sciences · doi:10.1016/0968-0004(91)90133-g · Cited by 122 · see citing works
Self-citationHockensmith, J. W., Kubasek, W., Vorachek, W. R., & von Hippel, P. H. (1986) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(17)35677-6 · Cited by 115 · see citing works
Preferential interaction of the core histone tail domains with linker DNA
Angelov, D., Vitolo, J. M., Mutskov, V. J., et al. (2001) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.121171498 · Cited by 101 · see citing works
Self-citationUV Laser Photolysis of DNA: Effect of Duplex Stability on Charge-Transfer Efficiency
Douki, T., Angelov, D., & Cadet, J. (2001) · Journal of the American Chemical Society · doi:10.1021/ja016426a · Cited by 100 · see citing works
Self-citationAngelov, D., Stefanovsky, V. Y., Dimitrov, S. I., et al. (1988) · Nucleic Acids Research · doi:10.1093/nar/16.10.4525 · Cited by 49 · see citing works
Self-citationStemp, E. D. A., & Barton, J. K. (2000) · Inorganic Chemistry · doi:10.1021/ic0000698 · Cited by 38 · see citing works
Angelov, D., Charra, M., Sève, M., et al. (2000) · Journal of Molecular Biology · doi:10.1006/jmbi.2000.4069 · Cited by 37 · see citing works
Self-citationHockensmith, J. W., Kubasek, W., Vorachek, W. R., & von Hippel, P. H. (1993) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(18)82314-6 · Cited by 28 · see citing works
Hockensmith, J. W., Kubasek, W., Evertsz, E. M., et al. (1993) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(18)82315-8 · Cited by 26 · see citing works
Analysis of Transcription Factor-Mediated Remodeling of Nucleosomal Arrays in a Purified System
Steger, D. J., Owen‐Hughes, T., John, S., et al. (1997) · Methods · doi:10.1006/meth.1997.0479 · Cited by 17 · see citing works
UV Laser Footprinting and Protein-DNA Crosslinking Application to Chromatin
Angelov, D., Khochbin, S., & Dimitrov, S. I. (2003) · Humana Press eBooks · doi:10.1385/1-59259-681-9:481 · Cited by 9 · see citing works
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Photoinduced Damage to Cellular DNA: Direct and Photosensitized Reactions<sup>†</sup>
Cadet, J., Mouret, S., Ravanat, J., & Douki, T. (2012) · Photochemistry and Photobiology · doi:10.1111/j.1751-1097.2012.01200.x · Cited by 300 · see citing works
Self-citationOxidatively generated complex DNA damage: Tandem and clustered lesions
Cadet, J., Ravanat, J.-L., TavernaPorro, M., Menoni, H., & Angelov, D. (2012) · Cancer Letters · doi:10.1016/j.canlet.2012.04.005 · Cited by 233 · see citing works
Self-citationCadet, J., & Wagner, J. R. (2014) · Archives of Biochemistry and Biophysics · doi:10.1016/j.abb.2014.05.001 · Cited by 169 · see citing works
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- Authors
- Angelov, D., Charra, M., Müller, C. W., Cadet, J., & Dimitrov, S.
- Affiliations
- Inserm (FR)
- European Molecular Biology Laboratory (FR)
- Commissariat à l'Énergie Atomique et aux Énergies Alternatives (FR)
- Corresponding author
- Cadet, Jean
- Venue
- Photochemistry and Photobiology
- Publisher
- American Society for Photobiology
- Published
- 2007-05-01
- Volume
- 77
- Issue
- 6
- Pages
- 592-596
- ISSN
- 0031-8655 (ISSN-L)
- OpenAlex
- W2034440081
- Cited by
- 18
- References
- 23
- Citations by year
- 2026: 1 · 2022: 1 · 2018: 1 · 2017: 1 · 2016: 1 · 2014: 1 · 2013: 3 · 2012: 3
- FWCI
- 0.35
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Photochemistry and Photobiology (publishedVersion)
- PubMed (publishedVersion)
- BioOne Complete (BioOne) (submittedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › DNA and Nucleic Acid Chemistry
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Cancer Research › NF-κB Signaling Pathways
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Structure and Dynamics
- Keywords
- NF-κB p50, protein-DNA interactions, solution structure, DNA binding, homodimer
- MeSH terms
- Base Sequence, Binding Sites, DNA, Lasers, Protein Binding, Protein Conformation, Solutions, Ultraviolet Rays, NF-kappa B, NF-kappa B p50 Subunit
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