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113 results (4 pages)
Cytokinin fluoroprobe reveals multiple sites of cytokinin perception at plasma membrane and endoplasmic reticulum
3        
Karolina Kubiasová; Juan Carlos Montesinos; Olga Šamajová; Jaroslav Nisler; Václav Mik; Hana Sem (...)
Nature Communications · 2020
Plant Reproductive Biology |         Plant Molecular Biology Research |         Plant Virus Research Studies |        
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Open Access
Publication
Atomic Charge Calculator II: web-based tool for the calculation of partial atomic charges
3 D        
Tomás Racek; Ondrej Schindler; Dominik Tousek; Vladimír Horský; Karel Berka; Jaroslav Koca; Radka (...)
Nucleic Acids Research · 2020
Advanced Chemical Physics Studies |         Crystallography and molecular interactions |         Computational Drug Discovery Methods |        
Dataset 1
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Open Access
Publication
Uncovering of cytochrome P450 anatomy by SecStrAnnotator
4 D        
Midlik, Adam; Navrátilová, Veronika; Moturu, Taraka Ramji; Koča, Jaroslav; Svobodová, Radka; Ber (...)
Scientific Reports · 2020
Pharmacogenetics and Drug Metabolism |         Microbial Metabolic Engineering and Bioproduction |         Microbial Natural Products and Biosynthesis |        
Dataset 2
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Open Access
Publication
CATH: increased structural coverage of functional space
5        
Ian Sillitoe; Nicola Bordin; Natalie L. Dawson; Vaishali Waman; Paul Ashford; Harry Scholes; Camilla (...)
Nucleic Acids Research · 2020
Cell Image Analysis Techniques |        
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Open Access
Publication
Visualization and Analysis of Protein Structures with LiteMol Suite
2        
David, Sehnal; Radka, Svobodová; Karel, Berka; Lukáš, Pravda; Adam, Midlik; Jaroslav, Koča
N/A · 2020
Protein Structure and Dynamics |         Enzyme Structure and Function |         Bioinformatics and Genomic Networks |        
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Restricted/Closed access
Publication
Automated Family-Wide Annotation of Secondary Structure Elements
2        
Adam, Midlik; Ivana, Hutařová Vařeková; Jan, Hutař; Taraka Ramji, Moturu; Veronika, Navrátilov (...)
N/A · 2019
Enzyme Structure and Function |         Protein Structure and Dynamics |         Microbial Metabolic Engineering and Bioproduction |        
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Restricted/Closed access
Publication
In vitro testing of flash-frozen sublingual membranes for storage and reproducible permeability studies of macromolecular drugs from solution or nanofiber mats
3 D        
Berka, Pavel; Stránská, Denisa; Semecký, Vladimír; Berka, Karel; Doležal, Pavel
International Journal of Pharmaceutics · 2019
Advanced Drug Delivery Systems |         Salivary Gland Disorders and Functions |         Oral microbiology and periodontitis research |        
Dataset 1
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Open Access
Publication
Synthesis of novel galeterone derivatives and evaluation of their in vitro activity against prostate cancer cell lines
2        
Radek Jorda; Eva Řezníčková; Urszula Kiełczewska; Jadwiga Maj; Jacek W. Morzycki; Leszek Siergi (...)
European Journal of Medicinal Chemistry · 2019
Estrogen and related hormone effects |         Steroid Chemistry and Biochemistry |         Computational Drug Discovery Methods |        
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Open Access
Publication
PDBe-KB: a community-driven resource for structural and functional annotations
4        
Varadi, Mihaly; Berrisford, John; Deshpande, Mandar; Nair, Sreenath S.; Gutmanas, Aleksandras; Armst (...)
Nucleic Acids Research · 2019
Advanced Proteomics Techniques and Applications |         Enzyme Structure and Function |         Protein Structure and Dynamics |        
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Open Access
Publication
Channelsdb and Moleonline - Database and Tool for Analysis of Biomacromolecular Tunnels and Pores
       
Lukáš Pravda; David Sehnal; Karel Berka; Veronika Navrátilová; Dominik Toušěk; Václav Bazgier (...)
Biophysical Journal · 2018
Supramolecular Self-Assembly in Materials |         Spectroscopy Techniques in Biomedical and Chemical Research |         Molecular spectroscopy and chirality |        
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Open Access
Publication
Interactive 3D Macromolecular Structure Data Mining with MolQL and Litemol Suite
       
David Sehnal; Mandar Deshpande; Alexander Rose; Lukas Pravda; Adam Midlik; Radka Svobodová Vařekov (...)
Biophysical Journal · 2018
Microbial Metabolic Engineering and Bioproduction |         Protein Structure and Dynamics |         Enzyme Structure and Function |        
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Open Access
Publication
Membrane-attached mammalian cytochromes P450: An overview of the membrane's effects on structure, drug binding, and interactions with redox partners
2        
Martin Šrejber; Veronika Navrátilová; Markéta Paloncýová; Václav Bazgier; Karel Berka; Pavel (...)
Journal of Inorganic Biochemistry · 2018
Pharmacogenetics and Drug Metabolism |         Drug Transport and Resistance Mechanisms |         Computational Drug Discovery Methods |        
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Open Access
Publication
Secondary Structure Elements - Annotations and Schematic 2D Visualizations Stable for Individual Protein Families
       
Radka Svobodova Varekova; Adam Midlik; Ivana Hutarova Varekova; Jan Hutar; Veronika Navratilova; Jar (...)
Biophysical Journal · 2018
Microbial Metabolic Engineering and Bioproduction |         Enzyme Catalysis and Immobilization |         Protein Structure and Dynamics |        
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Open Access
Publication
Structural patterns of the human ABCC4/MRP4 exporter in lipid bilayers rationalize clinically observed polymorphisms
2        
B. Chantemargue; F. Di Meo; K. Berka; N. Picard; H. Arnion; M. Essig; P. Marquet; M. Otyepka; P. Tro (...)
Pharmacological Research · 2018
Drug Transport and Resistance Mechanisms |         Liver Disease Diagnosis and Treatment |         Hepatitis B Virus Studies |        
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Open Access
Publication
Discovery of N2-(4-Amino-cyclohexyl)-9-cyclopentyl-N6-(4-morpholin-4-ylmethyl-phenyl)-9H-purine-2,6-diamine as a Potent FLT3 Kinase Inhibitor for Acute Myeloid Leukemia with FLT3 M (...)
2        
Tomáš Gucký; Eva Řezníčková; Tereza Radošová Muchová; Radek Jorda; Zuzana Klejová; Veroni (...)
Journal of Medicinal Chemistry · 2018
Acute Myeloid Leukemia Research |         Chronic Myeloid Leukemia Treatments |         Chronic Lymphocytic Leukemia Research |        
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Open Access
Publication
MolMeDB: Molecules on Membranes Database
6        
Jakub Juracka; Martin Srejber; Michaela Melikova; Václav Bazgier; Karel Berka
Database · 2018
Analytical Chemistry and Chromatography |         Computational Drug Discovery Methods |         Molecular spectroscopy and chirality |        
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Open Access
Publication
MOLEonline: a web-based tool for analyzing channels, tunnels and pores (2018 update)
3        
Lukás Pravda; David Sehnal; Dominik Tousek; Veronika Navrátilová; Václav Bazgier; Karel Berka; R (...)
Nucleic Acids Research · 2018
Calcium signaling and nucleotide metabolism |         RNA and protein synthesis mechanisms |         Ion Channels and Receptors |        
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Open Access
Publication
LiteMol suite: interactive web-based visualization of large-scale macromolecular structure data
2        
David Sehnal; Mandar Deshpande; Radka Svobodová Vařeková; Saqib Mir; Karel Berka; Adam Midlik; Lu (...)
Nature Methods · 2017
Protein Structure and Dynamics |         Genetics, Bioinformatics, and Biomedical Research |         Bioinformatics and Genomic Networks |        
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Restricted/Closed access
Publication
Surface properties of MoS2 probed by inverse gas chromatography and their impact on electrocatalytic properties
3        
Otyepková, Eva; Lazar, Petr; Luxa, Jan; Berka, Karel; Čépe, Klára; Sofer, Zdeněk; Pumera, Marti (...)
Nanoscale · 2017
nanoparticles nucleation surface interactions |         Gas Sensing Nanomaterials and Sensors |         Chemical Thermodynamics and Molecular Structure |        
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Open Access
Publication
Real-Time Interactive Visualisation of Large Macromolecular Assemblies and Molecular Machines at Atomic Resolution
       
David Sehnal; Mandar Deshpande; Radka Svobodova Varekova; Saquib Mir; Karel Berka; Adam Midlik; Luka (...)
Biophysical Journal · 2017
Enzyme Structure and Function |         Advanced Proteomics Techniques and Applications |         Genomics and Phylogenetic Studies |        
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Open Access
Publication
LiteMol: web-based three-dimensional visualization of macromolecular structure data
       
Matthew J. Conroy; David Sehnal; Mandar Deshpande; Radka Svobodova; Saqib Mir; Karel Berka; Adam Mid (...)
Acta Crystallographica Section A Foundations and Advances · 2017
Genetics, Bioinformatics, and Biomedical Research |         Bioinformatics and Genomic Networks |         Scientific Computing and Data Management |        
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Open Access
Publication
Acetylated deoxycholic (DCA) and cholic (CA) acids are potent ligands of pregnane X (PXR) receptor
2        
Alejandro, Carazo; Lucie, Hyrsova; Jan, Dusek; Hana, Chodounska; Alzbeta, Horvatova; Karel, Berka; V (...)
Toxicology Letters · 2017
Drug Transport and Resistance Mechanisms |         Pharmacogenetics and Drug Metabolism |         Estrogen and related hormone effects |        
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Restricted/Closed access
Publication
ChannelsDB: database of biomacromolecular tunnels and pores
3        
Lukás Pravda; David Sehnal; Radka Svobodová Vareková; Veronika Navrátilová; Dominik Tousek; Kar (...)
Nucleic Acids Research · 2017
Enzyme Structure and Function |         Mass Spectrometry Techniques and Applications |         Protein Structure and Dynamics |        
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Open Access
Publication
Molecular insights into the role of a distal F240A mutation that alters CYP1A1 activity towards persistent organic pollutants
2        
Veronika, Navrátilová; Markéta, Paloncýová; Karel, Berka; Shintaro, Mise; Yuki, Haga; Chisato, (...)
Biochimica et Biophysica Acta (BBA) - General Subjects · 2017
Pharmacogenetics and Drug Metabolism |         Chemical Reactions and Isotopes |         Biosimilars and Bioanalytical Methods |        
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Restricted/Closed access
Publication
ALK5 kinase inhibitory activity and synthesis of 2,3,4-substituted 5,5-dimethyl-5,6-dihydro-4H-pyrrolo[1,2-b]pyrazoles
2        
Eva Řezníčková; Lukáš Tenora; Pavlína Pospíšilová; Juraj Galeta; Radek Jorda; Karel Berka; (...)
European Journal of Medicinal Chemistry · 2017
TGF-β signaling in diseases |         Genetic factors in colorectal cancer |         Protein Kinase Regulation and GTPase Signaling |        
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Open Access
Publication
RH421 binds into the ATP-binding site on the Na+/K+-ATPase
2        
Miroslav, Huličiak; Václav, Bazgier; Karel, Berka; Martin, Kubala
Biochimica et Biophysica Acta (BBA) - Biomembranes · 2017
Ion Transport and Channel Regulation |         Ion channel regulation and function |         Hormonal Regulation and Hypertension |        
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Open Access
Publication
Exponential repulsion improves structural predictability of molecular docking
2        
Václav Bazgier; Karel Berka; Michal Otyepka; Pavel Banás
Journal of Computational Chemistry · 2016
Computational Drug Discovery Methods |         Protein Structure and Dynamics |         Enzyme Structure and Function |        
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Open Access
Publication
Arabidopsis histidine kinase 4 cytokinin receptor – The object of interest in ligand-receptor study
       
Lucia Gallová; Zoila Gándara Barreiro; Václav Bazgier; Karel Berka; Pavel Mazura; Lukáš Spícha (...)
New Biotechnology · 2016
Plant Physiology and Cultivation Studies |         Plant Pathogens and Fungal Diseases |         Plant-Microbe Interactions and Immunity |        
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Open Access
Publication
Structural Bioinformatics Databases of General Use
       
Jaroslav Koča; Radka Svobodová Vařeková; Lukáš Pravda; Karel Berka; Stanislav Geidl; David Seh (...)
N/A · 2016
Computational Drug Discovery Methods |         Protein Structure and Dynamics |         RNA and protein synthesis mechanisms |        
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Restricted/Closed access
Publication
Detection of Channels
       
Jaroslav Koča; Radka Svobodová Vařeková; Lukáš Pravda; Karel Berka; Stanislav Geidl; David Seh (...)
N/A · 2016
Electrochemical Analysis and Applications |         Analytical Chemistry and Chromatography |         Ion channel regulation and function |        
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Restricted/Closed 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