ChannelsDB 2.0: a comprehensive database of protein tunnels and pores in AlphaFold era von Špačková, Anna, Vávra, Ondřej, Raček, Tomáš, Bazgier, Václav, Sehnal, David, Damborský, Jiří, Svobodová, Radka, Bednář, David, Berka, Karel

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HotSpot Wizard 3.0: web server for automated design of mutations and smart libraries based on sequence input information von Sumbalova, Lenka, Stourac, Jan, Martinek, Tomas, Bednar, David, Damborsky, Jiri

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Site-Specific Analysis of Protein Hydration Based on Unnatural Amino Acid Fluorescence von Amaro, Mariana, Brezovský, Jan, Kováčová, Silvia, Sýkora, Jan, Bednář, David, Němec, Václav, Lišková, Veronika, Kurumbang, Nagendra Prasad, Beerens, Koen, Chaloupková, Radka, Paruch, Kamil, Hof, Martin, Damborský, Jiří

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CAVER Analyst 2.0: analysis and visualization of channels and tunnels in protein structures and molecular dynamics trajectories von Jurcik, Adam, Bednar, David, Byska, Jan, Marques, Sergio M, Furmanova, Katarina, Daniel, Lukas, Kokkonen, Piia, Brezovsky, Jan, Strnad, Ondrej, Stourac, Jan, Pavelka, Antonin, Manak, Martin, Damborsky, Jiri, Kozlikova, Barbora

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Computational Design of Stable and Soluble Biocatalysts von Musil, Milos, Konegger, Hannes, Hon, Jiri, Bednar, David, Damborsky, Jiri

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Simulation of Ligand Transport in Receptors Using CaverDock von Hozzová, Jana, Vávra, Ondřej, Bednář, David, Filipovič, Jiří

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Visual Support for the Loop Grafting Workflow on Proteins von Opaleny, Filip, Ulbrich, Pavol, Planas-Iglesias, Joan, Byska, Jan, Stourac, Jan, Bednar, David, Furmanova, Katarina, Kozlikova, Barbora

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InVADo: Interactive Visual Analysis of Molecular Docking Data von Schafer, Marco, Brich, Nicolas, Byska, Jan, Marques, Sergio M., Bednar, David, Thiel, Philipp, Kozlikova, Barbora, Krone, Michael

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FireProt: Energy- and Evolution-Based Computational Design of Thermostable Multiple-Point Mutants von Bednar, David, Beerens, Koen, Sebestova, Eva, Bendl, Jaroslav, Khare, Sagar, Chaloupkova, Radka, Prokop, Zbynek, Brezovsky, Jan, Baker, David, Damborsky, Jiri

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Deep Insights into the Specific Evolution of Fungal Hybrid B Heme Peroxidases von Zámocký, Marcel, Musil, Miloš, Danchenko, Maksym, Ferianc, Peter, Chovanová, Katarína, Baráth, Peter, Poljovka, Andrej, Bednář, David

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FireProtASR: A Web Server for Fully Automated Ancestral Sequence Reconstruction von Musil, Milos, Khan, Rayyan Tariq, Beier, Andy, Stourac, Jan, Konegger, Hannes, Damborsky, Jiri, Bednar, David

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DockVis: Visual Analysis of Molecular Docking Trajectories von Furmanova, Katarina, Vavra, Ondrej, Kozlikova, Barbora, Damborsky, Jiri, Vonasek, Vojtech, Bednar, David, Byska, Jan

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Structural Biology and Protein Engineering of Thrombolytics von Mican, Jan, Toul, Martin, Bednar, David, Damborsky, Jiri

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Comparison of Fungal Thermophilic and Mesophilic Catalase-Peroxidases for Their Antioxidative Properties von Poljovka, Andrej, Musil, Miloš, Bednář, David, Chovanová, Katarína, Bauerová-Hlinková, Vladena, Bellová, Jana, Kohútová, Lenka, Baráth, Peter, Zámocký, Marcel

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Engineering the protein dynamics of an ancestral luciferase von Schenkmayerova, Andrea, Pinto, Gaspar P., Toul, Martin, Marek, Martin, Hernychova, Lenka, Planas-Iglesias, Joan, Daniel Liskova, Veronika, Pluskal, Daniel, Vasina, Michal, Emond, Stephane, Dörr, Mark, Chaloupkova, Radka, Bednar, David, Prokop, Zbynek, Hollfelder, Florian, Bornscheuer, Uwe T., Damborsky, Jiri

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CAVER Analyst 1.0: graphic tool for interactive visualization and analysis of tunnels and channels in protein structures von Kozlikova, Barbora, Sebestova, Eva, Sustr, Vilem, Brezovsky, Jan, Strnad, Ondrej, Daniel, Lukas, Bednar, David, Pavelka, Antonin, Manak, Martin, Bezdeka, Martin, Benes, Petr, Kotry, Matus, Gora, Artur, Damborsky, Jiri, Sochor, Jiri

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Substrate inhibition by the blockage of product release and its control by tunnel engineering von Kokkonen, Piia, Beier, Andy, Mazurenko, Stanislav, Damborsky, Jiri, Bednar, David, Prokop, Zbynek

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FireProtDB: database of manually curated protein stability data von Stourac, Jan, Dubrava, Juraj, Musil, Milos, Horackova, Jana, Damborsky, Jiri, Mazurenko, Stanislav, Bednar, David

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Decoding the intricate network of molecular interactions of a hyperstable engineered biocatalyst von Markova, Klara, Chmelova, Klaudia, Marques, Sérgio M, Carpentier, Philippe, Bednar, David, Damborsky, Jiri, Marek, Martin

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Illuminating the mechanism and allosteric behavior of NanoLuc luciferase von Nemergut, Michal, Pluskal, Daniel, Horackova, Jana, Sustrova, Tereza, Tulis, Jan, Barta, Tomas, Baatallah, Racha, Gagnot, Glwadys, Novakova, Veronika, Majerova, Marika, Sedlackova, Karolina, Marques, Sérgio M., Toul, Martin, Damborsky, Jiri, Prokop, Zbynek, Bednar, David, Janin, Yves L., Marek, Martin

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