Sensitivity of the RNA Structure to Ion Conditions as Probed by Molecular Dynamics Simulations of Common Canonical RNA Duplexes

por Kührová, Petra, Mlýnský, Vojtěch, Otyepka, Michal, Šponer, Jiří, Banáš, Pavel
Publicado 2023

Simple Adjustment of Intranucleotide Base-Phosphate Interaction in the OL3 AMBER Force Field Improves RNA Simulations

por Mlýnský, Vojtěch, Kührová, Petra, Stadlbauer, Petr, Krepl, Miroslav, Otyepka, Michal, Banáš, Pavel, Šponer, Jiří
Publicado 2023

Parallel G-triplexes and G-hairpins as potential transitory ensembles in the folding of parallel-stranded DNA G-Quadruplexes

por Stadlbauer, Petr, Kührová, Petra, Vicherek, Lukáš, Banáš, Pavel, Otyepka, Michal, Trantírek, Lukáš, Šponer, Jiří
Publicado 2019

Structural dynamics of propeller loop: towards folding of RNA G-quadruplex

por Havrila, Marek, Stadlbauer, Petr, Kührová, Petra, Banáš, Pavel, Mergny, Jean-Louis, Otyepka, Michal, Šponer, Jiří
Publicado 2018

Hairpins participating in folding of human telomeric sequence quadruplexes studied by standard and T-REMD simulations

por Stadlbauer, Petr, Kührová, Petra, Banáš, Pavel, Koča, Jaroslav, Bussi, Giovanni, Trantírek, Lukáš, Otyepka, Michal, Šponer, Jiří
Publicado 2015

Automatic Learning of Hydrogen-Bond Fixes in the AMBER RNA Force Field

por Fröhlking, Thorben, Mlýnský, Vojtěch, Janeček, Michal, Kührová, Petra, Krepl, Miroslav, Banáš, Pavel, Šponer, Jiří, Bussi, Giovanni
Publicado 2022

Local-to-global signal transduction at the core of a Mn(2+) sensing riboswitch

por Suddala, Krishna C., Price, Ian R., Dandpat, Shiba S., Janeček, Michal, Kührová, Petra, Šponer, Jiří, Banáš, Pavel, Ke, Ailong, Walter, Nils G.
Publicado 2019