| 1 |
Phosphorothioate Substitutions in RNA Structure Studied by Molecular Dynamics Simulations, QM/MM Calculations, and NMR Experiments
Zhang ZY, Vogele J, Mrazikova K, Kruse H, Cang XH, Wohnert J, Krepl M, Sponer J
Journal of Physical Chemistry B, 125(3), 825, 2021 |
| 2 |
RNA Structural Dynamics As Captured by Molecular Simulations: A Comprehensive Overview
Sponer J, Bussi G, Krepl M, Banas P, Bottaro S, Cunha RA, Gil-Ley A, Pinamonti G, Poblete S, Jureacka P, Walter NG, Otyepka M
Chemical Reviews, 118(8), 4177, 2018 |
| 3 |
Microsecond-Scale MD Simulations of HIV-1 DIS Kissing-Loop Complexes Predict Bulged-In Conformation of the Bulged Bases and Reveal Interesting Differences between Available Variants of the AMBER RNA Force Fields
Havrila M, Zgarbova M, Jurecka P, Banas P, Krepl M, Otyepka M, Sponer J
Journal of Physical Chemistry B, 119(49), 15176, 2015 |
| 4 |
Effect of Guanine to Inosine Substitution on Stability of Canonical DNA and RNA Duplexes: Molecular Dynamics Thermodynamics Integration Study
Krepl M, Otyepka M, Banas P, Sponer J
Journal of Physical Chemistry B, 117(6), 1872, 2013 |
| 5 |
Bioinformatics and Molecular Dynamics Simulation Study of L1 Stalk Non-Canonical rRNA Elements: Kink-Turns, Loops, and Tetraloops
Krepl M, Reblova K, Koca J, Sponer J
Journal of Physical Chemistry B, 117(18), 5540, 2013 |
