Molecular Modelling and Bioinformatics

Articles

• Acridine-Based Chalcone 1C and ABC Transporters

  FRANKO Ondrej CIZMARIKOVA Martina KELLO Martin MICHALKOVA Radka WESOLOWSKA Olga SRODA-POMIANEK Kamila MARQUES Sérgio Manuel BEDNÁŘ David HAZIKOVA Viktoria LISKA Tomas Jan HABALOVA Viera

  Article in Periodical

  International Journal of Molecular Sciences, year: 2025, volume: 26, edition: 9, DOI

• Anticipating protein evolution with successor sequence predictor

  KHAN Rayyan Tariq KOHOUT Pavel MUSIL Miloš ROSINSKA Monika DAMBORSKÝ Jiří MAZURENKO Stanislav BEDNÁŘ David

  Article in Periodical

  Journal of Cheminformatics, year: 2025, volume: 17, edition: 1, DOI

• Assessing the impact of His-tags on activity and stability of staphylokinase variants

  STULAJTEROVA Monika AMBRO Lubos SEDLAKOVA Dagmar NEMERGUT Michal KOHOUT Pavel MAZURENKO Stanislav VARHAC Rastislav STRUNGA Alan TOUL Martin PROKOP Zbyněk DAMBORSKÝ Jiří TOMKOVA Maria SEDLÁK Erik

  Article in Periodical

  International journal of biological macromolecules, year: 2025, volume: 328, edition: November 2025, DOI

• Automated Engineering Protein Dynamics via Loop Grafting: Improving Renilla Luciferase Catalysis

  PLANAS IGLESIAS Joan MAJEROVÁ Marika PLUSKAL Daniel VAŠINA Michal DAMBORSKÝ Jiří PROKOP Zbyněk MAREK Martin BEDNÁŘ David

  Article in Periodical

  ACS Catalysis, year: 2025, volume: 15, edition: 4, DOI

• Caver Web 2.0: analysis of tunnels and ligand transport in dynamic ensembles of proteins

  MARQUES Sérgio Manuel BORKO Simeon VÁVRA Ondřej DVORSKÝ Jan KOHOUT Petr KABOUREK Petr HEJTMÁNEK Lukáš DAMBORSKÝ Jiří BEDNÁŘ David

  Article in Periodical

  Nucleic Acids Research, year: 2025, volume: 53, edition: May 2025, DOI

• Decoding Protein Stabilization: Impact on Aggregation, Solubility, and Unfolding Mechanisms

  HAVLÁSEK Martin MARQUES Sérgio Manuel SZOTKOWSKÁ Veronika KUNKA Antonín BABKOVÁ Petra DAMBORSKÝ Jiří PROKOP Zbyněk BEDNÁŘ David

  Article in Periodical

  Journal of Chemical Information and Modeling, year: 2025, volume: 65, edition: 16, DOI

• Engineering Dehalogenase Enzymes Using Variational Autoencoder-Generated Latent Spaces and Microfluidics

  KOHOUT Pavel VAŠINA Michal MAJEROVÁ Marika NOVÁKOVÁ Veronika DAMBORSKÝ Jiří BEDNÁŘ David MAREK Martin PROKOP Zbyněk MAZURENKO Stanislav

  Article in Periodical

  JACS AU, year: 2025, volume: 5, edition: 2, DOI

• Increased thermal stability of FGF10 leads to ectopic signaling during development

  CZYREK Aleksandra Anna BARAN Karolina HRUBÁ Eva HORACKOVA Aneta BOSÁKOVÁ Veronika CHUDZIAN Julia FAFÍLEK Bohumil LASKOVA Veronika STEPANKOVA Veronika BEDNÁŘ David KARL Kelly KASPAREK Petr BOSÁKOVÁ Michaela KILLINGER Michal SZOTKOWSKA Tereza PROCHAZKA Jan ZIEBA Jennifer T RICO LLANOS Gustavo FRIČ Jan HADZIC Stefan LOKU Edma WUJAK Magdalena SVOZILOVÁ Kateřina STROBLOVÁ Michaela SEDLACEK Radislav HRISTOVA Kalina KRAKOW Deborah KUBOVCIAK Jan DELATTRE Mathys BARTOSZEWSKI Rafal BUCHTOVÁ Marcela KROWARSCH Daniel CHALOUPKOVÁ Radka ZAKRZEWSKA Malgorzata KREJČÍ Pavel

  Article in Periodical

  Cellular and molecular life sciences, year: 2025, volume: 82, edition: 1, DOI

• Quantum computing for faster enzyme discovery and engineering

  DAMBORSKÝ Jiří KOUBA Petr SIVIC Josef VAŠINA Michal BEDNÁŘ David MAZURENKO Stanislav

  Article in Periodical

  Nature Catalysis, year: 2025, volume: 8, edition: 9, DOI

• Visual Support for the Loop Grafting Workflow on Proteins

  OPÁLENÝ Filip ULBRICH Pavol PLANAS IGLESIAS Joan BYŠKA Jan ŠTOURAČ Jan BEDNÁŘ David FURMANOVÁ Katarína KOZLÍKOVÁ Barbora

  Article in Periodical

  IEEE Transactions on Visualization and Computer Graphics, year: 2025, volume: 31, edition: 1, DOI