Marie Zgarbová

University of Ostrava — Czech Republic

Biochemistry, Genetics and Molecular Biology · Life Sciences

25h-index4.7kcitations53works3.02yr avg
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Research Topics

DNA and Nucleic Acid Chemistry(47), RNA and protein synthesis mechanisms(37), Bacteriophages and microbial interactions(12), Protein Structure and Dynamics(11), Advanced biosensing and bioanalysis techniques(11)

Publications53 total

A-type helicity controls efficient nonenzymatic template copying of nucleic acids
Chemical Communications·2025Open Access
A-type helicity controls efficient nonenzymatic template copying of nucleic acids
2025Open Access
Correction to “Sequence-Dependent Shape and Stiffness of DNA and RNA Double Helices: Hexanucleotide Scale and Beyond”
Journal of Chemical Information and Modeling·2025Open Access
A-type helicity controls efficient nonenzymatic template copying of nucleic acids
2025Open Access
Deciphering Dickerson–Drew DNA Equilibrium beyond the BI/BII DNA Dichotomy by Interpretation of <sup>31</sup>P NMR Parameters
Journal of Chemical Theory and Computation·2025Open Access
Implicit Electronic Polarization via Charge Scaling in Amber OLx Nucleic Acid Force Fields Improves Ion Pairing without Backbone Reparametrization
Journal of Chemical Theory and Computation·2025· 4 citedOpen Access
Sequence-Dependent Shape and Stiffness of DNA and RNA Double Helices: Hexanucleotide Scale and Beyond
Journal of Chemical Information and Modeling·2025· 1 citedOpen Access
Amber-OL15-ECC: an Amber force field for nucleic acids with improved ion binding properties
2025· 2 citedOpen Access
Sequence-dependent shape and stiffness of DNA and RNA double helices: hexanucleotide scale and beyond
2025Open Access
Refinement of the Sugar Puckering Torsion Potential in the AMBER DNA Force Field
Journal of Chemical Theory and Computation·2025· 19 citedOpen Access
Refinement of the Sugar Puckering Torsion Potential in the AMBER DNA Force Field
2024· 1 citedOpen Access
Multistate B- to A- transition in protein-DNA Binding – How well is it described by current AMBER force fields?
Journal of Biomolecular Structure and Dynamics·2024· 9 citedOpen Access
Assessing the Current State of Amber Force Field Modifications for DNA─2023 Edition
Journal of Chemical Theory and Computation·2023· 58 citedOpen Access
Probabilistic Interpretation of NMR <i>J</i>-Couplings Determines BI–BII State Equilibria in DNA
Journal of Chemical Theory and Computation·2022· 3 cited
Continuous B- to A-Transition in Protein-DNA Binding - How Well Is It Described by Current AMBER Force Fields?
2022Open Access
The <scp>Ad‐MD</scp> method to calculate <scp>NMR</scp> shift including effects due to conformational dynamics: The <scp><sup>31</sup>P NMR</scp> shift in <scp>DNA</scp>
Journal of Computational Chemistry·2021· 8 cited
Z-DNA as a Touchstone for Additive Empirical Force Fields and a Refinement of the Alpha/Gamma DNA Torsions for AMBER
Journal of Chemical Theory and Computation·2021· 79 cited
Z-DNA as a Touchstone for Additive Empirical Force Fields and a Refinement of the Alpha/Gamma DNA torsions for AMBER
2021· 2 citedOpen Access
Correction to “Improving the Performance of the Amber RNA Force Field by Tuning the Hydrogen-Bonding Interactions”
Journal of Chemical Theory and Computation·2019· 25 citedOpen Access
Improving the Performance of the Amber RNA Force Field by Tuning the Hydrogen-Bonding Interactions
Journal of Chemical Theory and Computation·2019· 149 citedOpen Access
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Frequent Co-authors

Petr Jurečka(46), Jiřı́ Šponer(37), Michal Otyepka(28), Pavel Banáš(19), Thomas E. Cheatham(9), Miroslav Krepl(9), Filip Lankaš(9), Petra Kührová(7), Arnošt Mládek(5), F. Javier Luque(5), Marek Havrila(5), Vojtěch Mlýnský(5), Rodrigo Galindo‐Murillo(3), Giovanni Bussi(3), Robert B. Best(3), Judit E. Šponer(3), Daniel Svozil(3), Tomáš Dršata(3), Jiří Fukal(3), Jakub Šebera(3)