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113 results (4 pages)
Behavior of Human Cytochromes P450 on Lipid Membranes
2        
Karel, Berka; Markéta, Paloncýová; Pavel, Anzenbacher; Michal, Otyepka
The Journal of Physical Chemistry B · 2013
Lipid Membrane Structure and Behavior |         Pharmacogenetics and Drug Metabolism |         Enzyme Catalysis and Immobilization |        
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Unknown Access
Publication
Antiallergic Effects of Pigments Isolated from Green Sea Urchin (Strongylocentrotus droebachiensis) Shells
2        
Olga N, Pozharitskaya; Alexander N, Shikov; Marina N, Makarova; Svetlana A, Ivanova; Vera M, Kosman; (...)
Planta Medica · 2013
Bioactive Compounds and Antitumor Agents |         Echinoderm biology and ecology |         Marine Sponges and Natural Products |        
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Unknown Access
Publication
PDBsum additions
3        
Tjaart A. P. de Beer; Karel Berka; Janet M. Thornton; Roman A. Laskowski
Nucleic Acids Research · 2013
Bioinformatics and Genomic Networks |         Genetic Associations and Epidemiology |         Protein Structure and Dynamics |        
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Open Access
Publication
MOLE 2.0: advanced approach for analysis of biomacromolecular channels
3        
Sehnal D.; Varekova R.S.; Berka K.; Pravda L.; Navratilova V.; Banas P.; Ionescu C.-M.; Otyepka M.; (...)
Journal of Cheminformatics · 2013
Ion channel regulation and function |         RNA and protein synthesis mechanisms |         Mass Spectrometry Techniques and Applications |        
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Open Access
Publication
Binding of quinidine radically increases the stability and decreases the flexibility of the cytochrome P450 2D6 active site
2        
Karel, Berka; Eva, Anzenbacherová; Tereza, Hendrychová; Reinhard, Lange; Vlastimil, Mašek; Pavel, (...)
Journal of Inorganic Biochemistry · 2012
Pharmacogenetics and Drug Metabolism |         Analytical Chemistry and Chromatography |         Innovative Microfluidic and Catalytic Techniques Innovation |        
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Restricted/Closed access
Publication
Convergence of Free Energy Profile of Coumarin in Lipid Bilayer
3        
Paloncýová, Markéta; Berka, Karel; Otyepka, Michal
Journal of Chemical Theory and Computation · 2012
thermodynamics and calorimetric analyses |         Lipid Membrane Structure and Behavior |         Free Radicals and Antioxidants |        
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Open Access
Publication
Positioning of Antioxidant Quercetin and Its Metabolites in Lipid Bilayer Membranes: Implication for Their Lipid-Peroxidation Inhibition
2        
Košinová, Pavlína; Berka, Karel; Wykes, Michael; Otyepka, Michal; Trouillas, Patrick
The Journal of Physical Chemistry B · 2012
Phytochemicals and Antioxidant Activities |         Antioxidant Activity and Oxidative Stress |         Photosynthetic Processes and Mechanisms |        
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Unknown Access
Publication
MOLEonline 2.0: interactive web-based analysis of biomacromolecular channels
3        
Karel Berka; Ondrej Hanák; David Sehnal; Pavel Banás; Veronika Navrátilová; Deepti Jaiswal Kundu (...)
Nucleic Acids Research · 2012
Mass Spectrometry Techniques and Applications |         RNA and protein synthesis mechanisms |         Analytical Chemistry and Chromatography |        
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Open Access
Publication
Is There a Relationship Between the Substrate Preferences and Structural Flexibility of Cytochromes P450?
2        
Michal, Otyepka; Karel, Berka; Pavel, Anzenbacher
Current Drug Metabolism · 2012
Pharmacogenetics and Drug Metabolism |         Computational Drug Discovery Methods |         Hormonal Regulation and Hypertension |        
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Unknown Access
Publication
Dynamics and Hydration of the Active Sites of Mammalian Cytochromes P450 Probed by Molecular Dynamics Simulations
2        
Tereza, Hendrychova; Karel, Berka; Veronika, Navratilova; Pavel, Anzenbacher; Michal, Otyepka
Current Drug Metabolism · 2012
Pharmacogenetics and Drug Metabolism |         Microbial Metabolic Engineering and Bioproduction |         Computational Drug Discovery Methods |        
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Unknown Access
Publication
Novel Covalent Bond in Proteins: Calculations on Model Systems Question the Bond Stability
2        
Milan, Ončák; Karel, Berka; Petr, Slavíček
ChemPhysChem · 2011
Free Radicals and Antioxidants |         Biochemical Acid Research Studies |         Microbial metabolism and enzyme function |        
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Restricted/Closed access
Publication
Membrane Position of Ibuprofen Agrees with Suggested Access Path Entrance to Cytochrome P450 2C9 Active Site
3        
Berka, Karel; Hendrychová, Tereza; Anzenbacher, Pavel; Otyepka, Michal
The Journal of Physical Chemistry A · 2011
Pharmacogenetics and Drug Metabolism |         Receptor Mechanisms and Signaling |         Analytical Chemistry and Chromatography |        
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Open Access
Publication
Insenstivity to Close Contacts and Inability to Predict Protein Foldability
3        
Karel, Berka; Michal, Otyepka
Journal of Biomolecular Structure and Dynamics · 2011
Protein Structure and Dynamics |         Enzyme Structure and Function |         RNA and protein synthesis mechanisms |        
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Unknown Access
Publication
On the Reliability of the AMBER Force Field and its Empirical Dispersion Contribution for the Description of Noncovalent Complexes
2        
Michal, Kolár; Karel, Berka; Petr, Jurecka; Pavel, Hobza
ChemPhysChem · 2010
Advanced Chemical Physics Studies |         Spectroscopy and Quantum Chemical Studies |         Crystallography and molecular interactions |        
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Restricted/Closed access
Publication
Energy Matrix of Structurally Important Side-Chain/Side-Chain Interactions in Proteins
2        
Karel, Berka; Roman A, Laskowski; Pavel, Hobza; Jiří, Vondrášek
Journal of Chemical Theory and Computation · 2010
Protein Structure and Dynamics |         Enzyme Structure and Function |         RNA and protein synthesis mechanisms |        
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Unknown Access
Publication
Analysis of Energy Stabilization inside the Hydrophobic Core of Rubredoxin
2        
Karel, Berka; Pavel, Hobza; Jirí, Vondrásek
ChemPhysChem · 2009
Advanced Chemical Physics Studies |         Spectroscopy and Quantum Chemical Studies |         Hemoglobin structure and function |        
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Restricted/Closed access
Publication
Representative Amino Acid Side Chain Interactions in Proteins. A Comparison of Highly Accurate Correlatedab InitioQuantum Chemical and Empirical Potential Procedures
2        
Karel, Berka; Roman, Laskowski; Kevin E, Riley; Pavel, Hobza; Jiří, Vondrášek
Journal of Chemical Theory and Computation · 2009
Protein Structure and Dynamics |         Advanced Chemical Physics Studies |         Crystallography and molecular interactions |        
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Unknown Access
Publication
Another role of proline: stabilization interactions in proteins and protein complexes concerning proline and tryptophane
2        
Lada, Biedermannova; Kevin, E Riley; Karel, Berka; Pavel, Hobza; Jiri, Vondrasek
Physical Chemistry Chemical Physics · 2008
Protein Structure and Dynamics |         Enzyme Structure and Function |         Mass Spectrometry Techniques and Applications |        
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Unknown Access
Publication
Quantum Chemical Benchmark Energy and Geometry Database for Molecular Clusters and Complex Molecular Systems (www.begdb.com): A Users Manual and Examples
       
Jan Řezáč; Petr Jurečka; Kevin E. Riley; Jiří Černý; Haydee Valdes; Kristýna Pluháčková; (...)
Collection of Czechoslovak Chemical Communications · 2008
Advanced Chemical Physics Studies |         Catalysis and Oxidation Reactions |         Catalytic Processes in Materials Science |        
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Open Access
Publication
The Stabilization Energy of the GLU-LYS Salt Bridge in the Protein/Water Environment: Correlated Quantum Chemical ab initio, DFT and Empirical Potential Studies
       
Jan Řezáč; Karel Berka; Dominik Horinek; Pavel Hobza; Jiří Vondrášek
Collection of Czechoslovak Chemical Communications · 2008
Protein Structure and Dynamics |         Crystallography and molecular interactions |         Molecular Sensors and Ion Detection |        
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Unknown Access
Publication
Ligand binding to the human MT2 melatonin receptor: The role of residues in transmembrane domains 3, 6, and 7
2        
Petr, Mazna; Karel, Berka; Irena, Jelinkova; Ales, Balik; Petr, Svoboda; Veronika, Obsilova; Tomas, (...)
Biochemical and Biophysical Research Communications · 2005
Receptor Mechanisms and Signaling |         Circadian rhythm and melatonin |         Neurobiology and Insect Physiology Research |        
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Restricted/Closed access
Publication
ERRATUM: Molecular modeling of human MT2 melatonin receptor: the role of Val204, Leu272 and Tyr298 in ligand binding
       
Petr Mazna; Veronika Obsilova; Irena Jelinkova; Ales Balik; Karel Berka; Zofie Sovova; Rüdiger Ettr (...)
Journal of Neurochemistry · 2004
Circadian rhythm and melatonin |         Neurobiology and Insect Physiology Research |         Photosynthetic Processes and Mechanisms |        
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Restricted/Closed access
Publication
Molecular modeling of human MT2 melatonin receptor: the role of Val204, Leu272 and Tyr298 in ligand binding
2        
Petr, Mazna; Veronika, Obsilova; Irena, Jelinkova; Ales, Balik; Karel, Berka; Zofie, Sovova; Rüdige (...)
Journal of Neurochemistry · 2004
Circadian rhythm and melatonin |         Photoreceptor and optogenetics research |         Receptor Mechanisms and Signaling |        
-
Open Access
Publication

Missing works

Mapping pathogenic patterns in membrane transporters from the GLUT transporter family
N/A · 2026
2025 Ownership and Maintenance of FAIRsharing record: MolMeDB
N/A · 2025
MOLEonline
N/A · 2025
2024 Ownership and Maintenance of FAIRsharing record: ValidatorDB
N/A · 2024
ChannelsDB 2.0
N/A · 2023
Dextrans as Permeation Markers and Carriers for Oral Transmucosal Drug Delivery
N/A · 2020
Molmedb - database about interactions of molecules with membranes
N/A · 2020
Pokusnice - hub chemických pokusů
N/A · 2019
Je strojové učení budoucností teoretické chemie?
N/A · 2018
Protein structures - a challenge of data delivery, visualization and annotation
N/A · 2018
Cytochrome P450 Oxidoreductase Simulations: Cofactors Movement and Structural Changes
N/A · 2015
Effect of Membrane Composition on the Structure of Membrane-Attached Cytochrome P450 3A4
N/A · 2015
Fluorone dyes binding to extracellular and cytoplasmic domains of Na, K-ATPase
N/A · 2013
Korespondenční seminář inspirovaný chemickou tematikou (KSICHT)
N/A · 2012
Structural properties of CYP2D6: Requirements for substrates and inhibitors
N/A · N/A

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