How different DNA-binding proteins affect long-range oxidative damage to DNA

Biochemistry
S R Rajski, J K Barton

Abstract

Here the effect on DNA-mediated charge transport of binding by a variety of proteins is examined. DNA assemblies were constructed that contain a tethered rhodium intercalator, as photooxidant, as well as two 5'-GG-3' sites flanking the DNA-binding site for the different proteins. By monitoring the ratio of oxidative damage promoted at the guanine doublet situated distal to the protein-binding site versus that at the proximal site as a function of protein binding, the effects of binding the proteins on DNA-mediated charge transport were determined. Proteins examined included both the wild-type and mutant methyltransferase, M.HhaI, which are base-flipping enzymes, the restriction endonuclease R.PvuII, a TATA-binding protein, which kinks the DNA, and the transcription factor Antennapedia homeodomain protein, which binds DNA through a helix-turn-helix motif. In general, it was observed that yields of long-range oxidative damage correlate with protein-dependent alterations in DNA base stacking. Interactions that disturb the DNA pi-stack inhibit DNA charge transport. Alternatively, interactions that promote no helix distortion but, as a result of tight packing, may rigidify the pi-stack, serve instead to enhance the ability of the DN...Continue Reading

Citations

Mar 5, 2002·Nature Biotechnology·Elizabeth M BoonJacqueline K Barton
Mar 31, 2011·Theoretical Biology & Medical Modelling·Alexei Kurakin
Aug 2, 2012·Physical Chemistry Chemical Physics : PCCP·Natalie B MurenJacqueline K Barton
Jul 13, 2013·Chembiochem : a European Journal of Chemical Biology·Kiyohiko KawaiAtsushi Maruyama
Jun 5, 2002·Annual Review of Biochemistry·Bernd Giese
Dec 18, 2002·Proceedings of the National Academy of Sciences of the United States of America·Melanie A O'Neill, Jacqueline K Barton
Jun 22, 2019·Annual Review of Biochemistry·Jacqueline K BartonElizabeth O'Brien
Jul 13, 2002·Journal of Cellular Physiology·Reba Goodman, Martin Blank
Dec 30, 2004·Photochemistry and Photobiology·Lezah W Roberts, Gary B Schuster
May 8, 2010·Organic & Biomolecular Chemistry·Cristina ButchosaAlexander A Voityuk
Mar 11, 2010·Chemical Reviews·Joseph C Genereux, Jacqueline K Barton
Oct 16, 2008·Journal of the American Chemical Society·Joseph C GenereuxJacqueline K Barton
Sep 10, 2008·Journal of the American Chemical Society·Xiaohua PengMarc M Greenberg
Jun 9, 2005·Chemical Reviews·Konrad SzaciłowskiGrazyna Stochel
Apr 25, 2002·Journal of the American Chemical Society·Richard P Fahlman, Dipankar Sen
Jul 1, 2004·Journal of the American Chemical Society·Tashica T WilliamsJacqueline K Barton
Feb 6, 2003·Journal of the American Chemical Society·Takanori OyoshiHiroshi Sugiyama
Jan 6, 2010·Journal of the American Chemical Society·Joseph C GenereuxJacqueline K Barton
Apr 3, 2002·Chemistry & Biology·Kazuhiko NakataniIsao Saito
May 2, 2002·Chemistry & Biology·Megan E NúñezJacqueline K Barton
Oct 13, 2010·The Journal of Physical Chemistry. B·Hiroshi TakashimaKeiichi Tsukahara
May 24, 2018·ACS Chemical Biology·Theodore J ZwangJacqueline K Barton
Sep 1, 2005·Journal of the American Chemical Society·Tadao Takada, Jacqueline K Barton
Jun 26, 2002·Biochemistry·Elizabeth M BoonJacqueline K Barton
Aug 1, 2002·Journal of the American Chemical Society·Matthias PascalyJacqueline K Barton
Mar 29, 2007·The Journal of Physical Chemistry. B·Alexander A Voityuk, William B Davis
Oct 17, 2001·Biochemistry·M E NúñezJ K Barton
Jul 23, 2002·Inorganic Chemistry·Patty K-L FuClaudia Turro
Oct 31, 2002·Journal of the American Chemical Society·Melanie A O'Neill, Jacqueline K Barton
Aug 16, 2003·The Journal of Organic Chemistry·Sarah Delaney, Jacqueline K Barton
Dec 4, 2003·Biochemistry·Sarah Delaney, Jacqueline K Barton
Feb 28, 2002·Journal of the American Chemical Society·Tashica T Williams, Jacqueline K Barton

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