prof. RNDr. Jiří Šponer, DrSc.

2015

• Extended molecular dynamics of a c-kit promoter quadruplex

  ISLAM Barira STADLBAUER Petr KREPL Miroslav KOČA Jaroslav NEIDLE Stephen HAIDER Shozeb ŠPONER Jiří

  Article in Periodical

  Nucleic Acids Research, year: 2015, volume: 43, edition: 18, DOI

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

  STADLBAUER Petr KUHROVÁ Petra BANÁŠ Pavel KOČA Jaroslav BUSSI Giovanni TRANTÍREK Lukáš OTYEPKA Michal ŠPONER Jiří

  Article in Periodical

  Nucleic Acids Research, year: 2015, volume: 43, edition: 20, DOI

• High-energy chemistry of formamide: A unified mechanism of nucleobase formation

  FERUS Martin NESVORNÝ David ŠPONER Jiří KUBELÍK Petr MICHALČÍKOVÁ Regina SHESTIVSKÁ Violetta ŠPONEROVÁ Judit CIVIŠ Svatopluk

  Article in Periodical

  Proceedings of the National Academy of Sciences of the United States of America, year: 2015, volume: 112, edition: 3, DOI

• Chemical Feasibility of the General Acid/Base Mechanism of glmS Ribozyme Self-Cleavage

  DUBECKÝ Matúš WALTER Nils G. ŠPONER Jiří OTYEPKA Michal BANÁŠ Pavel

  Article in Periodical

  Biopolymers, year: 2015, volume: 103, edition: 10, DOI

• Insights from 10 μs-scale molecular dynamics simulations of human telomeric quadruplexes

  ISLAM Barira STADLBAUER Petr HAIDER Shozeb ŠPONER Jiří

  Conference abstract

  Year: 2015, type: Conference abstract

• Insights into Stability and Folding of GNRA and UNCG Tetra loops Revealed by Microsecond Molecular Dynamics and Well-Tempered Metadynamics

  HALDAR Susanta KUHROVÁ Petra BANÁŠ Pavel SPIWOK Vojtěch ŠPONER Jiří HOBZA Pavel OTYEPKA Michal

  Article in Periodical

  Journal of Chemical Theory and Computation, year: 2015, volume: 11, edition: 8, DOI

• Intermediates in Folding of Human Telomeric Quadruplexes Studied by Molecular Dynamics Simulations

  STADLBAUER Petr ŠPONER Jiří

  Conference abstract

  Year: 2015, type: Conference abstract

• 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 Marek ZGARBOVÁ Marie JUREČKA Petr BANÁŠ Pavel KREPL Miroslav OTYEPKA Michal ŠPONER Jiří

  Article in Periodical

  Journal of Physical Chemistry B, year: 2015, volume: 119, edition: 49, DOI

• Molecular dynamic simulations of protein/RNA complexes: CRISPR/Csy4 endoribonuclease

  ESTARELLAS MARTIN Carolina OTYEPKA Michal KOČA Jaroslav BANÁŠ Pavel KREPL Miroslav ŠPONER Jiří

  Article in Periodical

  BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS, year: 2015, volume: 1850, edition: 5, DOI

• Quantum Chemical Benchmark Study on 46 RNA Backbone Families Using a Dinucleotide Unit

  KRUSE Holger MLÁDEK Arnošt GKIONIS Konstantinos HANSEN Andreas GRIMME Sstefan ŠPONER Jiří

  Article in Periodical

  Journal of Chemical Theory and Computation, year: 2015, volume: 11, edition: 10, DOI