Molecular dynamics simulations of sarcin–ricin rRNA motif

por Špačková, Nad'a, Šponer, Jiří
Publicado 2006

Molecular dynamics simulations and their application to four-stranded DNA

por Šponer, Jiří, Špačková, Nad’a
Publicado 2007

Structure and mechanical properties of the ribosomal L1 stalk three-way junction

por Réblová, Kamila, Šponer, Jiří, Lankaš, Filip
Publicado 2012

Explaining the varied glycosidic conformational, G-tract length and sequence preferences for anti-parallel G-quadruplexes

por Cang, Xiaohui, Šponer, Jiří, Cheatham, Thomas E.
Publicado 2011

Complexity of Guanine Quadruplex Unfolding Pathways Revealed by Atomistic Pulling Simulations

por Stadlbauer, Petr, Mlýnský, Vojtěch, Krepl, Miroslav, Šponer, Jiří
Publicado 2023

The Reactivity-Enhancing Role of Water Clusters in Ammonia Aqueous Solutions

por Cassone, Giuseppe, Saija, Franz, Sponer, Jiri, Shaik, Sason
Publicado 2023

Elastic properties of ribosomal RNA building blocks: molecular dynamics of the GTPase-associated center rRNA

por Rázga, Filip, Koča, Jaroslav, Mokdad, Ali, Šponer, Jiří
Publicado 2007

Insight into G-DNA Structural Polymorphism and Folding from Sequence and Loop Connectivity through Free Energy Analysis

por Cang, Xiaohui, Šponer, Jiří, Cheatham, III, Thomas E.
Publicado 2011

Molecular dynamics simulations suggest that RNA three-way junctions can act as flexible RNA structural elements in the ribosome

por Beššeová, Ivana, Réblová, Kamila, Leontis, Neocles B., Šponer, Jiří
Publicado 2010

MD simulations reveal the basis for dynamic assembly of Hfq–RNA complexes

por Krepl, Miroslav, Dendooven, Tom, Luisi, Ben F., Sponer, Jiri
Publicado 2021

Electrofreezing of Liquid Ammonia

por Cassone, Giuseppe, Sponer, Jiri, Sponer, Judit E., Saija, Franz
Publicado 2022

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

Structural and evolutionary classification of G/U wobble basepairs in the ribosome

por Mokdad, Ali, Krasovska, Maryna V., Sponer, Jiri, Leontis, Neocles B.
Publicado 2006

The genomic HDV ribozyme utilizes a previously unnoticed U-turn motif to accomplish fast site-specific catalysis

por Sefcikova, Jana, Krasovska, Maryna V., Šponer, Jiří, Walter, Nils G.
Publicado 2007

Molecular Dynamics and Quantum Mechanics of RNA: Conformational and Chemical Change We Can Believe In

por Ditzler, Mark A., Otyepka, Michal, Šponer, Jiřì, Walter, Nils G.
Publicado 2009

Rewarming the Primordial Soup: Revisitations and Rediscoveries in Prebiotic Chemistry

por Saladino, Raffaele, Šponer, Judit E., Šponer, Jiří, Di Mauro, Ernesto
Publicado 2017

Spontaneous binding of single-stranded RNAs to RRM proteins visualized by unbiased atomistic simulations with a rescaled RNA force field

por Krepl, Miroslav, Pokorná, Pavlína, Mlýnský, Vojtěch, Stadlbauer, Petr, Šponer, Jiří
Publicado 2022

Structural dynamics of possible late-stage intermediates in folding of quadruplex DNA studied by molecular simulations

por Stadlbauer, Petr, Krepl, Miroslav, Cheatham, Thomas E., Koča, Jaroslav, Šponer, Jiří
Publicado 2013

Synergy between NMR measurements and MD simulations of protein/RNA complexes: application to the RRMs, the most common RNA recognition motifs

por Krepl, Miroslav, Cléry, Antoine, Blatter, Markus, Allain, Frederic H.T., Sponer, Jiri
Publicado 2016

Sequential electron transfer governs the UV-induced self-repair of DNA photolesions

por Szabla, Rafał, Kruse, Holger, Stadlbauer, Petr, Šponer, Jiří, Sobolewski, Andrzej L.
Publicado 2018