TY - JOUR

T1 - Comparative Analysis of Nucleotide Fluorescent Analogs for Registration of DNA Conformational Changes Induced by Interaction with Formamidopyrimidine-DNA Glycosylase Fpg

AU - Kuznetsova, A. A.

AU - Kladova, O. A.

AU - Barthes, Nicolas P.F.

AU - Michel, Benoit Y.

AU - Burger, Alain

AU - Fedorova, O. S.

AU - Kuznetsov, N. A.

PY - 2019/11/1

Y1 - 2019/11/1

N2 - DNA-substrates containing fluorescent DNA base analogs are widely used to study protein–nucleic acid interactions. In the case of DNA-recognizing enzymes, this approach allows one to register conformational changes in DNA during the formation of enzyme–substrate complexes. An important part of such research is the design of model DNA substrates, which includes both the photophysical properties of the fluorescent groups and their location relative to a specific recognition site, namely, in the same chain on the 5′-, 3′-side or in the complementary chain opposite the specific site. In this work, we report a comparative study of the sensitivity of various fluorescent DNA base analogs, such as 2-aminopurine (aPu), pyrrolocytosine (CPy), 1,3-diaza-2-oxophenoxazine (tCO) and 3-hydroxychromone (3HC), to conformational transformations of DNA in the process of interaction with formamidopyrimidine-DNA glycosylase (Fpg) from Escherichia coli.

AB - DNA-substrates containing fluorescent DNA base analogs are widely used to study protein–nucleic acid interactions. In the case of DNA-recognizing enzymes, this approach allows one to register conformational changes in DNA during the formation of enzyme–substrate complexes. An important part of such research is the design of model DNA substrates, which includes both the photophysical properties of the fluorescent groups and their location relative to a specific recognition site, namely, in the same chain on the 5′-, 3′-side or in the complementary chain opposite the specific site. In this work, we report a comparative study of the sensitivity of various fluorescent DNA base analogs, such as 2-aminopurine (aPu), pyrrolocytosine (CPy), 1,3-diaza-2-oxophenoxazine (tCO) and 3-hydroxychromone (3HC), to conformational transformations of DNA in the process of interaction with formamidopyrimidine-DNA glycosylase (Fpg) from Escherichia coli.

KW - conformational dynamics

KW - DNA glycosylase Fpg

KW - fluorescence

KW - protein–nucleic acid interactions

UR - http://www.scopus.com/inward/record.url?scp=85078610382&partnerID=8YFLogxK

U2 - 10.1134/S1068162019060256

DO - 10.1134/S1068162019060256

M3 - Article

AN - SCOPUS:85078610382

VL - 45

SP - 591

EP - 598

JO - Russian Journal of Bioorganic Chemistry

JF - Russian Journal of Bioorganic Chemistry

SN - 1068-1620

IS - 6

ER -