The Analyst

, volume 146 , issue 14 , pages 4436-4440

Phenoxazine pseudonucleotides in DNA i-motifs allow precise profiling of small molecule binders by fluorescence monitoring

Vladimir B. Tsvetkov ^{1, 2, 3, 4, 5, 6, 7, 8}

Anton V Turaev ^{1, 4, 5, 6}

Nataliia A Petrunina ^{1, 4, 5, 6, 9, 10, 11}

Denis M Melnik ^{5, 6, 12, 13, 14}

Yuriy M Khodarovich ^{5, 6, 15, 16}

Galina Pozmogova ^{1, 4, 5, 6}

Timofei S. Zatsepin ^{5, 6, 12, 13, 14, 17, 18}

Anna M Varizhuk ^{1, 4, 5, 6, 9, 10, 11, 19}

Andrey V Aralov ^{5, 6, 9, 10, 11, 15, 16}

Hide authors affiliations Show authors affiliations: 19 affiliations

Research and Clinical Center of Physical-Chemical Medicine of Federal Medical Biological Agency, Moscow, Russia |

World-Class Research Center “Digital biodesign and personalized healthcare”, Sechenov First Moscow State Medical University, 8/2 Trubetskaya Str., Moscow, Russia |

A.V. Topchiev Institute of Petrochemical Synthesis RAS, Moscow, Russia |

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Research and Clinical Center of Physical-Chemical Medicine of Federal Medical Biological Agency |

⁵

Moscow

⁶

Russia |

⁷

World-Class Research Center “Digital biodesign and personalized healthcare”

⁸

Sechenov First Moscow State Medical University |

⁹

Moscow Institute of Physics and Technology, Dolgoprudny 141701, Russia |

¹⁰

Moscow Institute of Physics and Technology |

¹¹

Dolgoprudny 141701 |

¹²

Center for Life Sciences, Skolkovo Institute of Science and Technology, Bolshoy boulevard 30b1, Moscow, Russia |

¹³

Center for Life Sciences

¹⁴

Skolkovo Institute of Science and Technology |

¹⁵

Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Moscow, Russia |

¹⁶

Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry |

¹⁷

Lomonosov Moscow State University, Department of Chemistry, Leninskie Gory Str. 1-3, 119992 Moscow, Russia |

¹⁸

Lomonosov Moscow State University |

¹⁹

Center for Precision Genome Editing and Genetic Technologies for Biomedicine, Research and Clinical Center of Physical-Chemical Medicine, Moscow 119435, Russia |

Publication type: Journal Article

Publication date: 2021-05-31

Royal Society of Chemistry (RSC)

The Analyst

scimago Q2

wos Q2

SJR: 0.617

CiteScore: 7.0

Impact factor: 3.3

ISSN: 00032654, 13645528, 07417918

DOI: 10.1039/d1an00660f

Copy DOI

PubMed ID: 34132709

Biochemistry

Spectroscopy

Analytical Chemistry

Electrochemistry

Environmental Chemistry

Abstract

The lack of high throughput screening (HTS) techniques for small molecules that stabilize DNA iMs limits their development as perspective drug candidates. Here we showed that fluorescence monitoring for probing the effects of ligands on the iM stability using the FAM–BHQ1 pair provides incorrect results due to additional dye-related interactions. We developed an alternative system with fluorescent phenoxazine pseudonucleotides in loops that do not alter iM unfolding. At the same time, the fluorescence of phenoxazine residues is sensitive to iM unfolding that enables accurate evaluation of ligand-induced changes of iM stability. Our results provide the basis for new approaches for HTS of iM ligands.

Found

3 citations

Tsvetkov Vladimir

🤝

PhD in Chemistry

88 publications, 1 270 citations, 1 review

h-index: 19

A.V. Topchiev Institute of Petrochemical Synthesis RAS

Sechenov First Moscow State Medical University

Federal Research and Clinical Center of Physical-Chemical Medicine of Federal Medical Biological Agency

Modelling and Simulations

quadruplexes and i-motifs of DNA and RNA

1 citation

Ponomarenko Sergey

🥼 🤝

DSc in Chemistry, associate member of the Russian Academy of Sciences

261 publications, 6 104 citations, 64 reviews

h-index: 41

Lomonosov Moscow State University

Enikolopov Institute of Synthetic Polymeric Materials of the Russian Academy of Sciences

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Tsvetkov V. B. et al. Phenoxazine pseudonucleotides in DNA i-motifs allow precise profiling of small molecule binders by fluorescence monitoring // The Analyst. 2021. Vol. 146. No. 14. pp. 4436-4440.

GOST all authors (up to 50) Copy

Tsvetkov V. B. et al. Phenoxazine pseudonucleotides in DNA i-motifs allow precise profiling of small molecule binders by fluorescence monitoring // The Analyst. 2021. Vol. 146. No. 14. pp. 4436-4440.

RIS |

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RIS Copy

TY - JOUR

DO - 10.1039/d1an00660f

UR - https://xlink.rsc.org/?DOI=D1AN00660F

TI - Phenoxazine pseudonucleotides in DNA i-motifs allow precise profiling of small molecule binders by fluorescence monitoring

T2 - The Analyst

AU - Tsvetkov, Vladimir B.

AU - Turaev, Anton V

AU - Petrunina, Nataliia A

AU - Melnik, Denis M

AU - Khodarovich, Yuriy M

AU - Pozmogova, Galina

AU - Zatsepin, Timofei S.

AU - Varizhuk, Anna M

AU - Aralov, Andrey V

PY - 2021

DA - 2021/05/31

PB - Royal Society of Chemistry (RSC)

SP - 4436-4440

IS - 14

VL - 146

PMID - 34132709

SN - 0003-2654

SN - 1364-5528

SN - 0741-7918

ER -

BibTex |

Cite this

BibTex (up to 50 authors) Copy

@article{2021_Tsvetkov,

author = {Vladimir B. Tsvetkov and Anton V Turaev and Nataliia A Petrunina and Denis M Melnik and Yuriy M Khodarovich and Galina Pozmogova and Timofei S. Zatsepin and Anna M Varizhuk and Andrey V Aralov and others},

title = {Phenoxazine pseudonucleotides in DNA i-motifs allow precise profiling of small molecule binders by fluorescence monitoring},

journal = {The Analyst},

year = {2021},

volume = {146},

publisher = {Royal Society of Chemistry (RSC)},

month = {may},

url = {https://xlink.rsc.org/?DOI=D1AN00660F},

number = {14},

pages = {4436--4440},

doi = {10.1039/d1an00660f}

}

MLA

Cite this

MLA Copy

Tsvetkov, Vladimir B., et al. “Phenoxazine pseudonucleotides in DNA i-motifs allow precise profiling of small molecule binders by fluorescence monitoring.” The Analyst, vol. 146, no. 14, May. 2021, pp. 4436-4440. https://xlink.rsc.org/?DOI=D1AN00660F.

Publisher

Royal Society of Chemistry (RSC)

Journal

The Analyst

scimago Q2

wos Q2

SJR

0.617

CiteScore

7.0

Impact factor

3.3

ISSN

00032654 (Print)

13645528 (Electronic)

07417918 (Print)

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