List of Academic Publications (33)
The list contains mostly peer-reviewed articles published in journals with Impact Factor. Please click the article title to download it either as a preprint from arXiv, or from a web page of an open access publisher. If not available, feel free to drop me a line. I'll do my best to help you.
2024
33. Three epochs of nascent protein translocation through the ribosome exit tunnel
MH Kolář, H Mc Grath, FC Nepomuceno, M Černeková, accepted in WIREs RNA, 2024.
32. The interplay between peptides and RNA is critical for protoribosome compartmentalization and stability
S Codispoti, T Yamaguchi, M Makarov, VG Giacobelli, M Mašek, MH Kolář, AC Sanchez Rocha, K Fujishima, G Zanchetta, K Hlouchová Nucleic Acids Research, 2024, gkae823.
31. Sensitivity of peptide conformational dynamics in carbon nanotubes to directional mechanical forces
FC Nepomuceno, MH Kolář, under review 2024.
2023
30. Simulation of complex biomolecular systems: the ribosome challenge
LV Bock, S Gabrielli, MH Kolář, H Grubmüller, Annual Review of Biophysics, 2023.
2022
29. Binding of the peptide deformylase on the ribosome surface modulates the exit tunnel interior
H McGrath, M Černeková, MH Kolář, Biophysical Journal, 2022, 121, 4443-4451.
28. The effect of off-center σ-hole on the atom-centered partial charges in halogenated molecules
A Leskourová, MH Kolář, Journal of Computational Chemistry, 2022, 12, 864-869.
27. Folding of VemP into translation-arresting secondary structure is driven by the ribosome exit tunnel
MH Kolář, G Nagy, J Kunkel, SM Vaiana, LV Bock, H Grubmüller, Nucleic Acids Research, 2022, gkac038.
2021
26. Kotranslační děje aneb první okamžiky života proteinu (in Czech)
MH Kolář, Chemické listy, 2021, 115, 539-578.
25. Atomistic simulations of the human proteasome inhibited by a covalent ligand
MH Kolář, LV Bock, H Grubmüller, High Performance Computing in Science & Engineering 2021, 47-57.
2020
24. Assessment of Scalar Relativistic Effects on Halogen Bonding and Sigma-Hole Properties
MH Kolář, D Suchá, M Pitoňák, The International Journal of Quantum Chemistry, 2020, e26392.
23. Antitubercular Polyhalogenated Phenothiazines and Phenoselenazine with Reduced Binding to CNS Receptors
MG Nizi, J Desantis, Y Nakatani, S Massari, MA Mazzarella, G Shetye, S Sabatini, ML Barreca, G Manfroni, T Felicetti, R Rushton-Green, K Hards, G Latacz, G Satała, A Bojarski, V Ceccheti, MH Kolář, J Handzlik, G Cook, S Franzblau, O Tabarrini, European Journal of Medicinal Chemistry, 2020, 201, 112420.
List of Popular Science Articles (17)
16. Where did Czech chemists disappear?
MH Kolář, Vesmír, 2023, 102, 12, in Czech.
16. Who applies for Czech research grants and how successful is.
MH Kolář, R Hladík, Vesmír, 2020, 99, 134, in Czech.
15. Structure and Dynamics of a Ribosome-Regulatory Peptide
MH Kolář in Supercomputing in Science and Engineering 2017-18, K. Pešatová et al. Eds, 2019, ISBN 978-80-248-4289-9.
14. A thin line of authorship
MH Kolář, P Slavíček, Vesmír, 2019, 98, 50, in Czech.
13. Structure and Dynamics of Nascent Peptides in the Ribosome Exit Tunnel
H Grubmüller, MH Kolář, LV Bock, AC Vaiana, in High Performance Computing in Science and Engineering, P. Bastian et al. Eds, 2018.
12. Chemistry Olympiad or On the Life of Czech Young Chemists
MH Kolář, P Slavíček, Vesmír, online www.vesmir.cz, in Czech.
Other Texts (7)
7. From the Max Planck Institute to a university in Prague
MH Kolář, for Czexpats in Science, 2019, in Czech.
6. Don't be affraid of complicated equations (preparatory text for 53rd Chemistry Olympiad)
MH Kolář, V Palivec, 2016, in Czech.
5. Molecular modelling in drug development
M Kolář, PhD thesis, 2013
4. Computer Simulations with Gromacs Program Package, tutorial text for a project of Palacký University, Olomouc, entitled Advanced Education in Research and Application of Nanomaterials
M Kolář, 2011, in Czech.
3. Don't be afraid of quanta (preparatory text for 46th Chemistry Olympiad)
T Kubař, M Kolář, 2009, in Czech
2. The role of London dispersion forces in DNA structure stability: in silico experiment
M Kolář, MSc thesis, 2009
1. Structure and stabilization energy of phenol dimer
M Kolář, BSc thesis, 2007