Karel Berka
Titel
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PDBsum additions
TAP De Beer, K Berka, JM Thornton, RA Laskowski
Nucleic acids research 42 (D1), D292-D296, 2014
3062014
MOLE 2.0: advanced approach for analysis of biomacromolecular channels
D Sehnal, RS Vařeková, K Berka, L Pravda, V Navrátilová, P Banáš, ...
Journal of Cheminformatics 5, 39, 2013
1782013
Membrane position of ibuprofen agrees with suggested access path entrance to cytochrome P450 2C9 active site
K Berka, T Hendrychová, P Anzenbacher, M Otyepka
The journal of physical chemistry A 115 (41), 11248-11255, 2011
1442011
Photoluminescence effects of graphitic core size and surface functional groups in carbon dots: COO− induced red-shift emission
K Hola, AB Bourlinos, O Kozak, K Berka, KM Siskova, M Havrdova, ...
Carbon 70, 279-286, 2014
1432014
Quantum chemical benchmark energy and geometry database for molecular clusters and complex molecular systems (www. begdb. com): a users manual and examples
J Řezáč, P Jurečka, KE Riley, J Černý, H Valdes, K Pluháčková, K Berka, ...
Collection of Czechoslovak Chemical Communications 73 (10), 1261-1270, 2008
1292008
Tools and data services registry: a community effort to document bioinformatics resources
J Ison, K Rapacki, H Ménager, M Kalaš, E Rydza, P Chmura, C Anthon, ...
Nucleic acids research 44 (D1), D38-D47, 2016
1072016
Positioning of Antioxidant Quercetin and Its Metabolites in Lipid Bilayer Membranes: Implication for Their Lipid-Peroxidation Inhibition
P Košinová, K Berka, M Wykes, M Otyepka, P Trouillas
The Journal of Physical Chemistry B 116 (4), 1309-1318, 2012
1062012
MOLEonline 2.0: interactive web-based analysis of biomacromolecular channels
K Berka, O Hanák, D Sehnal, P Banáš, V Navrátilová, D Jaiswal, ...
Nucleic acids research 40 (W1), W222-W227, 2012
1032012
Representative Amino Acid Side Chain Interactions in Proteins. A Comparison of Highly Accurate Correlated ab Initio Quantum Chemical and Empirical Potential …
K Berka, R Laskowski, KE Riley, P Hobza, J Vondrasek
Journal of Chemical Theory and Computation 5 (4), 982-992, 2009
922009
Convergence of Free Energy Profile of Coumarin in Lipid Bilayer
M Paloncýová, K Berka, M Otyepka
Journal of Chemical Theory and Computation 8 (4), 1200-1211, 2012
882012
Behavior of Human Cytochromes P450 on Lipid Membranes
K Berka, M Paloncýová, P Anzenbacher, M Otyepka
The Journal of Physical Chemistry B 117 (39), 11556-11564, 2013
792013
Amphiphilic Drug-Like Molecules Accumulate in a Membrane below the Head Group Region
M Paloncýová, R DeVane, B Murch, K Berka, M Otyepka
The Journal of Physical Chemistry B 118 (4), 1030-1039, 2014
772014
Another role of proline: stabilization interactions in proteins and protein complexes concerning proline and tryptophane
L Biedermannova, KE Riley, K Berka, P Hobza, J Vondrasek
Physical Chemistry Chemical Physics 10 (42), 6350-6359, 2008
752008
LiteMol suite: interactive web-based visualization of large-scale macromolecular structure data
D Sehnal, M Deshpande, RS Vařeková, S Mir, K Berka, A Midlik, L Pravda, ...
Nature methods 14 (12), 1121-1122, 2017
692017
Benchmarking of Force Fields for Molecule–Membrane Interactions
M Paloncýová, G Fabre, RH DeVane, P Trouillas, K Berka, M Otyepka
Journal of Chemical Theory and Computation 10 (9), 4143-4151, 2014
652014
Synergism of antioxidant action of vitamins E, C and quercetin is related to formation of molecular associations in biomembranes
G Fabre, I Bayach, K Berka, M Paloncýová, M Starok, C Rossi, JL Duroux, ...
Chemical Communications 51 (36), 7713-7716, 2015
582015
Anatomy of enzyme channels
L Pravda, K Berka, RS Vařeková, D Sehnal, P Banáš, RA Laskowski, ...
BMC Bioinformatics 15 (1), 379, 2014
572014
Is there a relationship between the substrate preferences and structural flexibility of cytochromes P450?
M Otyepka, K Berka, P Anzenbacher
Current drug metabolism 13 (2), 130-142, 2012
572012
Dynamics and hydration of the active sites of mammalian cytochromes P450 probed by molecular dynamics simulations
T Hendrychova, K Berka, V Navratilova, P Anzenbacher, M Otyepka
Current drug metabolism 13 (2), 177-189, 2012
542012
MOLEonline: a web-based tool for analyzing channels, tunnels and pores (2018 update)
L Pravda, D Sehnal, D Toušek, V Navrátilová, V Bazgier, K Berka, ...
Nucleic acids research 46 (W1), W368-W373, 2018
532018
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Artikelen 1–20