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Thermodynamic Swings: How Ideal Complex of Cas9-RNA/DNA Forms. / Zhdanova, Polina V.; Lomzov, Alexander A.; Prokhorova, Daria V. et al.

In: International Journal of Molecular Sciences, Vol. 23, No. 16, 8891, 10.08.2022.

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

Harvard

Zhdanova, PV, Lomzov, AA, Prokhorova, DV, Stepanov, GA, Chernonosov, AA & Koval, VV 2022, 'Thermodynamic Swings: How Ideal Complex of Cas9-RNA/DNA Forms', International Journal of Molecular Sciences, vol. 23, no. 16, 8891. https://doi.org/10.3390/ijms23168891

APA

Zhdanova, P. V., Lomzov, A. A., Prokhorova, D. V., Stepanov, G. A., Chernonosov, A. A., & Koval, V. V. (2022). Thermodynamic Swings: How Ideal Complex of Cas9-RNA/DNA Forms. International Journal of Molecular Sciences, 23(16), [8891]. https://doi.org/10.3390/ijms23168891

Vancouver

Zhdanova PV, Lomzov AA, Prokhorova DV, Stepanov GA, Chernonosov AA, Koval VV. Thermodynamic Swings: How Ideal Complex of Cas9-RNA/DNA Forms. International Journal of Molecular Sciences. 2022 Aug 10;23(16):8891. doi: 10.3390/ijms23168891

Author

Zhdanova, Polina V. ; Lomzov, Alexander A. ; Prokhorova, Daria V. et al. / Thermodynamic Swings: How Ideal Complex of Cas9-RNA/DNA Forms. In: International Journal of Molecular Sciences. 2022 ; Vol. 23, No. 16.

BibTeX

@article{e3cf3f2c942043279106b74abf76fd80,
title = "Thermodynamic Swings: How Ideal Complex of Cas9-RNA/DNA Forms",
abstract = "Most processes of the recognition and formation of specific complexes in living systems begin with collisions in solutions or quasi-solutions. Then, the thermodynamic regulation of complex formation and fine tuning of complexes come into play. Precise regulation is very important in all cellular processes, including genome editing using the CRISPR-Cas9 tool. The Cas9 endonuclease is an essential component of the CRISPR-Cas-based genome editing systems. The attainment of high-specificity and -efficiency Cas9 during targeted DNA cleavage is the main problem that limits the practical application of the CRISPR-Cas9 system. In this study, we analyzed the thermodynamics of interaction of a complex's components of Cas9-RNA/DNA through experimental and computer simulation methods. We found that there is a small energetic preference during Cas9-RNA/DNA formation from the Cas9-RNA and DNA/DNA duplex. The small difference in binding energy is relevant for biological interactions and could be part of the sequence-specific recognition of double-stranded DNA by the CRISPR-Cas9 system.",
keywords = "Cas9, CRISPR–Cas systems, ITC, molecular dynamics, single-guide RNA, thermodynamics",
author = "Zhdanova, {Polina V.} and Lomzov, {Alexander A.} and Prokhorova, {Daria V.} and Stepanov, {Grigory A.} and Chernonosov, {Alexander A.} and Koval, {Vladimir V.}",
note = "Publisher Copyright: {\textcopyright} 2022 by the authors.",
year = "2022",
month = aug,
day = "10",
doi = "10.3390/ijms23168891",
language = "English",
volume = "23",
journal = "International Journal of Molecular Sciences",
issn = "1661-6596",
publisher = "Multidisciplinary Digital Publishing Institute (MDPI)",
number = "16",

}

RIS

TY - JOUR

T1 - Thermodynamic Swings: How Ideal Complex of Cas9-RNA/DNA Forms

AU - Zhdanova, Polina V.

AU - Lomzov, Alexander A.

AU - Prokhorova, Daria V.

AU - Stepanov, Grigory A.

AU - Chernonosov, Alexander A.

AU - Koval, Vladimir V.

N1 - Publisher Copyright: © 2022 by the authors.

PY - 2022/8/10

Y1 - 2022/8/10

N2 - Most processes of the recognition and formation of specific complexes in living systems begin with collisions in solutions or quasi-solutions. Then, the thermodynamic regulation of complex formation and fine tuning of complexes come into play. Precise regulation is very important in all cellular processes, including genome editing using the CRISPR-Cas9 tool. The Cas9 endonuclease is an essential component of the CRISPR-Cas-based genome editing systems. The attainment of high-specificity and -efficiency Cas9 during targeted DNA cleavage is the main problem that limits the practical application of the CRISPR-Cas9 system. In this study, we analyzed the thermodynamics of interaction of a complex's components of Cas9-RNA/DNA through experimental and computer simulation methods. We found that there is a small energetic preference during Cas9-RNA/DNA formation from the Cas9-RNA and DNA/DNA duplex. The small difference in binding energy is relevant for biological interactions and could be part of the sequence-specific recognition of double-stranded DNA by the CRISPR-Cas9 system.

AB - Most processes of the recognition and formation of specific complexes in living systems begin with collisions in solutions or quasi-solutions. Then, the thermodynamic regulation of complex formation and fine tuning of complexes come into play. Precise regulation is very important in all cellular processes, including genome editing using the CRISPR-Cas9 tool. The Cas9 endonuclease is an essential component of the CRISPR-Cas-based genome editing systems. The attainment of high-specificity and -efficiency Cas9 during targeted DNA cleavage is the main problem that limits the practical application of the CRISPR-Cas9 system. In this study, we analyzed the thermodynamics of interaction of a complex's components of Cas9-RNA/DNA through experimental and computer simulation methods. We found that there is a small energetic preference during Cas9-RNA/DNA formation from the Cas9-RNA and DNA/DNA duplex. The small difference in binding energy is relevant for biological interactions and could be part of the sequence-specific recognition of double-stranded DNA by the CRISPR-Cas9 system.

KW - Cas9

KW - CRISPR–Cas systems

KW - ITC

KW - molecular dynamics

KW - single-guide RNA

KW - thermodynamics

UR - http://www.scopus.com/inward/record.url?scp=85137125956&partnerID=8YFLogxK

U2 - 10.3390/ijms23168891

DO - 10.3390/ijms23168891

M3 - Article

C2 - 36012157

AN - SCOPUS:85137125956

VL - 23

JO - International Journal of Molecular Sciences

JF - International Journal of Molecular Sciences

SN - 1661-6596

IS - 16

M1 - 8891

ER -

ID: 37098243