prof. RNDr. Jiří Šponer, DrSc.

2017

• Folding of guanine quadruplex molecules-funnel-like mechanism or kinetic partitioning? An overview from MD simulation studies.

  ŠPONER Jiří BUSSI Giovanni STADLBAUER Petr KUHROVA Petra BANÁŠ Pavel ISLAM Barira HAIDER Shozeb NEIDLE Stephen OTYEPKA Michal

  Article in Periodical

  Biochimica et Biophysica Acta (BBA) - General Subjects, year: 2017, volume: 1861, edition: 5, DOI

• How to understand atomistic molecular dynamics simulations of RNA and protein-RNA complexes?

  ŠPONER Jiří KREPL Miroslav BANÁŠ Pavel KUHROVA P ZGARBOVÁ Marie JUREČKA Petr HAVRILA Marek OTYEPKA Michal

  Article in Periodical

  Wiley Interdisciplinary Reviews: RNA, year: 2017, volume: 8, edition: 3, DOI

• Channeling through Two Stacked Guanine Quartets of One and Two Alkali Cations in the Li+, Na+, K+, and Rb+ Series. Assessment of the Accuracy of the SIBFA Anisotropic Polarizable Molecular Mechanics Potential

  GRESH Nohad NASEEM-KHAN Sehr LAGARDERE Louis PIQUEMAL Jean-Philip ŠPONEROVÁ Judit ŠPONER Jiří

  Article in Periodical

  Journal of Physical Chemistry B, year: 2017, volume: 121, edition: 16, DOI

• MD and QM/MM Study of the Quaternary HutP Homohexamer Complex with mRNA, L-Histidine Ligand, and Mg2+

  POKORNÁ Pavlína KREPL Miroslav KRUSE Holger ŠPONER Jiří

  Article in Periodical

  Journal of Chemical Theory and Computation, year: 2017, volume: 13, edition: 11, DOI

• rRNA C-Loops: Mechanical Properties of a Recurrent Structural Motif

  DRSATA Tomas RÉBLOVÁ Kamila BESSEOVA Ivana ŠPONER Jiří LANKAS Filip

  Article in Periodical

  Journal of Chemical Theory and Computation, year: 2017, volume: 13, edition: 7, DOI

• Selectivity of major isoquinoline alkaloids from Chelidonium majus towards telomeric G-quadruplex: A study using a transition-FRET (t-FRET) assay

  NOUREINI Sakineh Kazemi ESMAEILI Hosein ABACHI Farzane KHIALI Soraia ISLAM Barira KUTA Martyna SABOURY Ali A. HOFFILLANN Marcin ŠPONER Jiří PARKINSON Gary HAIDER Shozeb

  Article in Periodical

  BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS, year: 2017, volume: 1861, edition: 8, DOI

• Structural study of the Fox-1 RRM protein hydration reveals a role for key water molecules in RRM-RNA recognition.

  KREPL Miroslav BLATTER Markus CLERY Antoine DAMBERGER Fred F ALLAIN Frederic H T ŠPONER Jiří

  Article in Periodical

  Nucleic acids research, year: 2017, DOI

• Structure of a Stable G-Hairpin

  GAJARSKÝ Martin ZIVKOVIC Martina Lenarcic STADLBAUER Petr PAGANO Bruno FIALA Radovan AMATO Jussara TOMASKA L´ubomir ŠPONER Jiří PLAVEC Janez TRANTÍREK Lukáš

  Article in Periodical

  Journal of the American Chemical Society, year: 2017, volume: 139, edition: 10, DOI

• Study of Fox-1 and SRSF1 RRMs - the molecular recognition and hydration

  KREPL Miroslav CLERY Antoine BLATTER Markus ALLAIN Frederic ŠPONER Jiří

  Conference abstract

  Year: 2017, type: Conference abstract

2016

• Assessing the Current State of Amber Force Field Modifications for DNA

  GALINDO-MURILLO Rodrigo ROBERTSON James C. ZGARBOVÁ Marie ŠPONER Jiří OTYEPKA Michal JUREČKA Petr CHEATHAM Thomas E.

  Article in Periodical

  Journal of Chemical Theory and Computation, year: 2016, volume: 12, edition: 8, DOI