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DNA complexes with human apurinic/apyrimidinic endonuclease 1 : structural insights revealed by pulsed dipolar EPR with orthogonal spin labeling. / Krumkacheva, Olesya A.; Shevelev, Georgiy Yu; Lomzov, Alexander A. et al.

In: Nucleic Acids Research, Vol. 47, No. 15, 05.09.2019, p. 7767-7780.

Research output: Contribution to journal › Article › peer-review

Harvard

Krumkacheva, OA, Shevelev, GY, Lomzov, AA, Dyrkheeva, NS, Kuzhelev, AA, Koval, VV, Tormyshev, VM, Polienko, YF, Fedin, MV, Pyshnyi, DV, Lavrik, OI & Bagryanskaya, EG 2019, 'DNA complexes with human apurinic/apyrimidinic endonuclease 1: structural insights revealed by pulsed dipolar EPR with orthogonal spin labeling', Nucleic Acids Research, vol. 47, no. 15, pp. 7767-7780. https://doi.org/10.1093/nar/gkz620

APA

Krumkacheva, O. A., Shevelev, G. Y., Lomzov, A. A., Dyrkheeva, N. S., Kuzhelev, A. A., Koval, V. V., Tormyshev, V. M., Polienko, Y. F., Fedin, M. V., Pyshnyi, D. V., Lavrik, O. I., & Bagryanskaya, E. G. (2019). DNA complexes with human apurinic/apyrimidinic endonuclease 1: structural insights revealed by pulsed dipolar EPR with orthogonal spin labeling. Nucleic Acids Research, 47(15), 7767-7780. https://doi.org/10.1093/nar/gkz620

Vancouver

Krumkacheva OA, Shevelev GY, Lomzov AA, Dyrkheeva NS, Kuzhelev AA, Koval VV et al. DNA complexes with human apurinic/apyrimidinic endonuclease 1: structural insights revealed by pulsed dipolar EPR with orthogonal spin labeling. Nucleic Acids Research. 2019 Sept 5;47(15):7767-7780. doi: 10.1093/nar/gkz620

Author

Krumkacheva, Olesya A. ; Shevelev, Georgiy Yu ; Lomzov, Alexander A. et al. / DNA complexes with human apurinic/apyrimidinic endonuclease 1 : structural insights revealed by pulsed dipolar EPR with orthogonal spin labeling. In: Nucleic Acids Research. 2019 ; Vol. 47, No. 15. pp. 7767-7780.

BibTeX

@article{5a6519f9520f4a60a715805b61b6adc9,
title = "DNA complexes with human apurinic/apyrimidinic endonuclease 1: structural insights revealed by pulsed dipolar EPR with orthogonal spin labeling",
abstract = "A DNA molecule is under continuous influence of endogenous and exogenous damaging factors, which produce a variety of DNA lesions. Apurinic/apyrimidinic sites (abasic or AP sites) are among the most common DNA lesions. In this work, we applied pulse dipolar electron paramagnetic resonance (EPR) spectroscopy in combination with molecular dynamics (MD) simulations to investigate in-depth conformational changes in DNA containing an AP site and in a complex of this DNA with AP endonuclease 1 (APE1). For this purpose, triarylmethyl (TAM)-based spin labels were attached to the 5' ends of an oligonucleotide duplex, and nitroxide spin labels were introduced into APE1. In this way, we created a system that enabled monitoring the conformational changes of the main APE1 substrate by EPR. In addition, we were able to trace substrate-to-product transformation in this system. The use of different (orthogonal) spin labels in the enzyme and in the DNA substrate has a crucial advantage allowing for detailed investigation of local damage and conformational changes in AP-DNA alone and in its complex with APE1.",
author = "Krumkacheva, {Olesya A.} and Shevelev, {Georgiy Yu} and Lomzov, {Alexander A.} and Dyrkheeva, {Nadezhda S.} and Kuzhelev, {Andrey A.} and Koval, {Vladimir V.} and Tormyshev, {Victor M.} and Polienko, {Yuliya F.} and Fedin, {Matvey V.} and Pyshnyi, {Dmitrii V.} and Lavrik, {Olga I.} and Bagryanskaya, {Elena G.}",
note = "{\textcopyright} The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research.",
year = "2019",
month = sep,
day = "5",
doi = "10.1093/nar/gkz620",
language = "English",
volume = "47",
pages = "7767--7780",
journal = "Nucleic Acids Research",
issn = "0305-1048",
publisher = "Oxford University Press",
number = "15",

}

RIS

TY - JOUR

T1 - DNA complexes with human apurinic/apyrimidinic endonuclease 1

T2 - structural insights revealed by pulsed dipolar EPR with orthogonal spin labeling

AU - Krumkacheva, Olesya A.

AU - Shevelev, Georgiy Yu

AU - Lomzov, Alexander A.

AU - Dyrkheeva, Nadezhda S.

AU - Kuzhelev, Andrey A.

AU - Koval, Vladimir V.

AU - Tormyshev, Victor M.

AU - Polienko, Yuliya F.

AU - Fedin, Matvey V.

AU - Pyshnyi, Dmitrii V.

AU - Lavrik, Olga I.

AU - Bagryanskaya, Elena G.

N1 - © The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research.

PY - 2019/9/5

Y1 - 2019/9/5

N2 - A DNA molecule is under continuous influence of endogenous and exogenous damaging factors, which produce a variety of DNA lesions. Apurinic/apyrimidinic sites (abasic or AP sites) are among the most common DNA lesions. In this work, we applied pulse dipolar electron paramagnetic resonance (EPR) spectroscopy in combination with molecular dynamics (MD) simulations to investigate in-depth conformational changes in DNA containing an AP site and in a complex of this DNA with AP endonuclease 1 (APE1). For this purpose, triarylmethyl (TAM)-based spin labels were attached to the 5' ends of an oligonucleotide duplex, and nitroxide spin labels were introduced into APE1. In this way, we created a system that enabled monitoring the conformational changes of the main APE1 substrate by EPR. In addition, we were able to trace substrate-to-product transformation in this system. The use of different (orthogonal) spin labels in the enzyme and in the DNA substrate has a crucial advantage allowing for detailed investigation of local damage and conformational changes in AP-DNA alone and in its complex with APE1.

AB - A DNA molecule is under continuous influence of endogenous and exogenous damaging factors, which produce a variety of DNA lesions. Apurinic/apyrimidinic sites (abasic or AP sites) are among the most common DNA lesions. In this work, we applied pulse dipolar electron paramagnetic resonance (EPR) spectroscopy in combination with molecular dynamics (MD) simulations to investigate in-depth conformational changes in DNA containing an AP site and in a complex of this DNA with AP endonuclease 1 (APE1). For this purpose, triarylmethyl (TAM)-based spin labels were attached to the 5' ends of an oligonucleotide duplex, and nitroxide spin labels were introduced into APE1. In this way, we created a system that enabled monitoring the conformational changes of the main APE1 substrate by EPR. In addition, we were able to trace substrate-to-product transformation in this system. The use of different (orthogonal) spin labels in the enzyme and in the DNA substrate has a crucial advantage allowing for detailed investigation of local damage and conformational changes in AP-DNA alone and in its complex with APE1.

UR - http://www.scopus.com/inward/record.url?scp=85072058932&partnerID=8YFLogxK

U2 - 10.1093/nar/gkz620

DO - 10.1093/nar/gkz620

M3 - Article

C2 - 31329919

VL - 47

SP - 7767

EP - 7780

JO - Nucleic Acids Research

JF - Nucleic Acids Research

SN - 0305-1048

IS - 15

ER -

ID: 21451817