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Dynamic probing of nucleic acid-protein interactions by biphotonic laser chemistry♣

E. P. VIDOLOVA-ANGELOVA1,* , Z. PESHEV2, D. A. ANGELOV3

Affiliation

  1. Institute of Solid State Physics, Bulgarian Academy of Sciences 72 Tzarigradsko Chaussee Blvd., 1784 Sofia, Bulgaria
  2. Institute of Electronics, Bulgarian Academy of Sciences 72 Tzarigradsko Chaussee Blvd., 1784 Sofia, Bulgaria
  3. Université de Lyon, LBMC, CNRS UMR 5239, Ecole Normale Supérieure de Lyon, 41 allée d’Italie, 69364 Lyon, cedex 07, France

Abstract

In this study, we describe a new approach for a millisecond dynamic study with high spatial resolution of non-equilibrium protein–DNA interactions in solution. The approach is based on mapping the time-resolved UV laser–induced biphotonic DNA oxidative lesions during DNA recognition and binding of a specific protein. Our laser “photofootprinting” approach was applied for studying the interaction of the human necrosis factor NF–B p50 homodimer bound to a 37 base pair DNA. Evidence is provided for the occurrence of a two-step process: rapid (30 ms) formation of the pre-equilibrium complex and slow (1 s) protein rearrangement and DNA conformation accommodation..

Keywords

DNA-transcription factors interactions, NF-κB, Biphotonic laser chemistry, UV laser footprinting.

Submitted at: Nov. 5, 2008
Accepted at: Sept. 9, 2009

Citation

E. P. VIDOLOVA-ANGELOVA, Z. PESHEV, D. A. ANGELOV, Dynamic probing of nucleic acid-protein interactions by biphotonic laser chemistry♣, Journal of Optoelectronics and Advanced Materials Vol. 11, Iss. 9, pp. 1198-1201 (2009)