New Fluorescent Analogs of Nucleotides Based on 3-Hydroxychromone for Recording Conformational Changes of DNA
- Authors: Kladova O.A.1, Kuznetsova A.A.1, Barthes N.P.2, Michel B.Y.2, Burger A.2, Fedorova O.S.1,3, Kuznetsov N.A.1,3
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Affiliations:
- Institute of Chemical Biology and Fundamental Medicine, Siberian Branch, Russian Academy of Sciences
- Institut de Chimie de Nice, UMR 7272, Université de Nice Sophia Antipolis
- Novosibirsk State University
- Issue: Vol 45, No 6 (2019)
- Pages: 599-607
- Section: Article
- URL: https://journals.rcsi.science/1068-1620/article/view/229264
- DOI: https://doi.org/10.1134/S1068162019060220
- ID: 229264
Cite item
Abstract
It has recently been found that derivatives of nucleotides containing а 3-hydroxychromone fluorescent dye can be used as sensitive markers of conformational changes of DNA. In this work, a comparative analysis of two fluorescent nucleotide derivatives—3-hydroxychromone a (3HC) and 3HC-modified uridine (FCU)—was performed during the study of protein–nucleic acid interactions for several human DNA repair enzymes, removing damaged nucleotides: DNA glycosylases AAG, OGG1, UNG2, and MBD4 and AP endonuclease APE1. The changes of fluorescence intensity significantly depended on the nature of neighbor nucleotides and may be opposite in direction for different cases. The FCU residue located in the complementary strand opposite to damaged nucleotide or in the same strand moved by few nucleotides, is very sensitive to processes induced by DNA glycosylases in the course of formation of enzyme–substrate complexes, which include local melting and bending of the DNA chain, as well as eversion of the damaged nucleotide from DNA double helix and insertion of amino acids of the active site into the void.
About the authors
O. A. Kladova
Institute of Chemical Biology and Fundamental Medicine, Siberian Branch, Russian Academy of Sciences
Email: fedorova@niboch.nsc.ru
Russian Federation, Novosibirsk, 630090
A. A. Kuznetsova
Institute of Chemical Biology and Fundamental Medicine, Siberian Branch, Russian Academy of Sciences
Email: fedorova@niboch.nsc.ru
Russian Federation, Novosibirsk, 630090
Nicolas P. F. Barthes
Institut de Chimie de Nice, UMR 7272, Université de Nice Sophia Antipolis
Email: fedorova@niboch.nsc.ru
France, Nice, CNRS, 06100
Benoit Y. Michel
Institut de Chimie de Nice, UMR 7272, Université de Nice Sophia Antipolis
Email: fedorova@niboch.nsc.ru
France, Nice, CNRS, 06100
Alain Burger
Institut de Chimie de Nice, UMR 7272, Université de Nice Sophia Antipolis
Email: fedorova@niboch.nsc.ru
France, Nice, CNRS, 06100
O. S. Fedorova
Institute of Chemical Biology and Fundamental Medicine, Siberian Branch, Russian Academy of Sciences; Novosibirsk State University
Author for correspondence.
Email: fedorova@niboch.nsc.ru
Russian Federation, Novosibirsk, 630090; Novosibirsk, 630090
N. A. Kuznetsov
Institute of Chemical Biology and Fundamental Medicine, Siberian Branch, Russian Academy of Sciences; Novosibirsk State University
Author for correspondence.
Email: fedorova@niboch.nsc.ru
Russian Federation, Novosibirsk, 630090; Novosibirsk, 630090