Michal Otyepka

According to our database, Michal Otyepka authored at least 12 papers between 2006 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2023

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

Petra Kührová, Vojtech Mlýnský, Michal Otyepka, Jirí Sponer, Pavel Banás

J. Chem. Inf. Model., April, 2023

2018

ChannelsDB: database of biomacromolecular tunnels and pores.

Lukás Pravda, David Sehnal, Radka Svobodová Vareková, Veronika Navrátilová, Dominik Tousek, Karel Berka, Michal Otyepka, Jaroslav Koca

Nucleic Acids Res., 2018

MOLEonline: a web-based tool for analyzing channels, tunnels and pores (2018 update).

Lukás Pravda, David Sehnal, Dominik Tousek, Veronika Navrátilová, Václav Bazgier, Karel Berka, Radka Svobodová Vareková, Jaroslav Koca, Michal Otyepka

Nucleic Acids Res., 2018

2017

Influence of BII Backbone Substates on DNA Twist: A Unified View and Comparison of Simulation and Experiment for All 136 Distinct Tetranucleotide Sequences.

Marie Zgarbová, Petr Jurecka, Filip Lankas, Thomas E. Cheatham III, Jirí Sponer, Michal Otyepka

J. Chem. Inf. Model., 2017

2016

Exponential repulsion improves structural predictability of molecular docking.

Václav Bazgier, Karel Berka, Michal Otyepka, Pavel Banás

J. Comput. Chem., 2016

2015

Effect of Cholesterol on the Structure of Membrane-Attached Cytochrome P450 3A4.

Veronika Navrátilová, Markéta Paloncýová, Michaela Kajsová, Karel Berka, Michal Otyepka

J. Chem. Inf. Model., 2015

2014

Anatomy of enzyme channels.

Lukás Pravda, Karel Berka, Radka Svobodová Vareková, David Sehnal, Pavel Banás, Roman A. Laskowski, Jaroslav Koca, Michal Otyepka

BMC Bioinform., 2014

2013

MOLE 2.0: advanced approach for analysis of biomacromolecular channels.

David Sehnal, Radka Svobodová Vareková, Karel Berka, Lukás Pravda, Veronika Navrátilová, Pavel Banás, Crina-Maria Ionescu, Michal Otyepka, Jaroslav Koca

J. Cheminformatics, 2013

2012

MOLE<i>online</i> 2.0: interactive web-based analysis of biomacromolecular channels.

Karel Berka, Ondrej Hanák, David Sehnal, Pavel Banás, Veronika Navrátilová, Deepti Jaiswal Kundu, Crina-Maria Ionescu, Radka Svobodová Vareková, Jaroslav Koca, Michal Otyepka

Nucleic Acids Res., 2012

2011

Transferable scoring function based on semiempirical quantum mechanical PM6-DH2 method: CDK2 with 15 structurally diverse inhibitors.

Petr Dobes, Jindrich Fanfrlík, Jan Rezác, Michal Otyepka, Pavel Hobza

J. Comput. Aided Mol. Des., 2011

2006

Mechanism of enhanced conversion of 1, 2, 3-trichloropropane by mutant haloalkane dehalogenase revealed by molecular modeling.

Pavel Banás, Michal Otyepka, Petr Jerábek, Martin Petrek, Jirí Damborský

J. Comput. Aided Mol. Des., 2006

CAVER: a new tool to explore routes from protein clefts, pockets and cavities.

Martin Petrek, Michal Otyepka, Pavel Banás, Pavlína Kosinová, Jaroslav Koca, Jirí Damborský

BMC Bioinform., 2006