Raman and surface-enhanced Raman scattering spectroscopy of bis-netropsins and their DNA complexes.
The interactions of three bis-netropsins (bis-Nts), which are potent catalytic inhibitors of DNA-binding enzymes, with three double-stranded oligonucleotides (OLIGs), which contain sites of different specific affinities for each bis-Nt, were analyzed. Raman spectroscopy was performed for selective monitoring of modifications of the bis-Nt or the OLIG structure upon bis-Nt-DNA binding, and surface-enhanced Raman scattering spectroscopy (SERS) was an additional tool for topology studies of ligand-DNA complexes. The spectral data showed conformational changes of both partners (bis-Nt and OLIG) upon complexation. Structural variations of bis-Nts appeared to be dependent on a bis-Nt-OLIG binding constant and were found to be small in the specific DNA binding and highest for nonspecific binding of bis-Nt with the corresponding OLIG. The conformational changes of the OLIGs were varied with a bis-Nt-OLIG binding constant in the same manner. The bis-Nts seemed to induce a perturbation in the OLIG's structure, as well as in the positions of their direct binding. These DNA structural modification effects may explain the inhibition of DNA-binding enzymes in the variety of very distinct DNA-enzyme binding sites by bis-Nts reported previously.
Ermishov
M
M
Institut Fédératif de Recherche, Biomolécules, UFR de Pharmacie, Université de Reims Champagne-Ardenne, France.
Sukhanova
A
A
Kryukov
E
E
Grokhovsky
S
S
Zhuze
A
A
Oleinikov
V
V
Jardillier
J C
JC
Nabiev
I
I
D000900:Anti-Bacterial Agents / Q000737:chemistry / Q000378:metabolism; D000998:Antiviral Agents / Q000737:chemistry / Q000378:metabolism; D001665:Binding Sites; D004268:DNA-Binding Proteins / Q000037:antagonists & inhibitors; D019281:Dimerization; D009429:Netropsin / Q000031:analogs & derivatives / Q000737:chemistry* / Q000378:metabolism; D009690:Nucleic Acid Conformation; D009838:Oligodeoxyribonucleotides / Q000737:chemistry / Q000378:metabolism*; D012996:Solutions; D013059:Spectrum Analysis, Raman; D020349:Surface Plasmon Resonance
D000900:Anti-Bacterial Agents; D000998:Antiviral Agents; D004268:DNA-Binding Proteins; D009838:Oligodeoxyribonucleotides; D012996:Solutions; D009429:Netropsin