doc. Mgr. David Bednář, Ph.D.

2023

• Advancing Enzyme's Stability and Catalytic Efficiency through Synergy of Force-Field Calculations, Evolutionary Analysis, and Machine Learning

  KUNKA Antonín MARQUES Sérgio Manuel HAVLÁSEK Martin VAŠINA Michal VELÁTOVÁ Nikola CENGELOVÁ Lucia KOVÁŘ David DAMBORSKÝ Jiří MAREK Martin BEDNÁŘ David PROKOP Zbyněk

  Article in Periodical

  ACS Catalysis, year: 2023, volume: 13, edition: 19, DOI

• Atypical homodimerization revealed by the structure of the (S)-enantioselective haloalkane dehalogenase DmmarA from Mycobacterium marinum

  ŠNAJDAROVÁ Karolína MARQUES Sérgio Manuel DAMBORSKÝ Jiří BEDNÁŘ David MAREK Martin

  Article in Periodical

  Acta Crystallographica Section D: Structural Biology, year: 2023, volume: 79, edition: November, DOI

• Catalytic mechanism for Renilla-type luciferases

  SMITH Andrea TOUL Martin PLUSKAL Daniel BAATALLAH Racha GAGNOT Glwadys RANGEL PAMPLONA PIZARRO PINTO José Gaspar SANTANA Vinicius T. T. STUCHLÁ Markéta NEUGEBAUER Petr CHAIYEN Pimchai DAMBORSKÝ Jiří BEDNÁŘ David JANIN Yves L. L. PROKOP Zbyněk MAREK Martin

  Article in Periodical

  Nature Catalysis, year: 2023, volume: 6, edition: 1, DOI

• Comparison of Fungal Thermophilic and Mesophilic Catalase-Peroxidases for Their Antioxidative Properties

  POLJOVKA Andrej MUSIL Miloš BEDNÁŘ David CHOVANOVA Katarina BAUEROVA-HLINKOVA Vladena BELLOVA Jana KOHUTOVA Lenka BARATH Peter ZAMOCKY Marcel

  Article in Periodical

  Antioxidants, year: 2023, volume: 12, edition: 7, DOI

• Computer-assisted stabilization of fibroblast growth factor FGF-18

  VILÍM Jan GHAZALOVÁ Tereza PETULOVÁ Eliška HORACKOVA Aneta STEPANKOVA Veronika CHALOUPKOVÁ Radka BEDNÁŘ David DAMBORSKÝ Jiří PROKOP Zbyněk

  Article in Periodical

  Computational and Structural Biotechnology Journal, year: 2023, volume: 21, edition: October 2023, DOI

• Domino-like effect of C112R mutation on ApoE4 aggregation and its reduction by Alzheimer’s Disease drug candidate

  NEMERGUT Michal MARQUES Sérgio Manuel UHRÍK Lukáš VÁŇOVÁ Tereza NEZVEDOVÁ Markéta GADARA Darshak Chandulal JHA Durga TULIS Jan NOVÁKOVÁ Veronika PLANAS IGLESIAS Joan KUNKA Antonín LEGRAND Anthony Thomas P HŘÍBKOVÁ Hana POSPÍŠILOVÁ Veronika SEDMÍK Jiří RAŠKA Jan PROKOP Zbyněk DAMBORSKÝ Jiří BOHAČIAKOVÁ Dáša SPÁČIL Zdeněk HERNYCHOVÁ Lenka BEDNÁŘ David MAREK Martin

  Article in Periodical

  Molecular Neurodegeneration, year: 2023, volume: 18, edition: 1, DOI

• Identification, characterization, and engineering of glycosylation in thrombolytics

  TOUL Martin SLONKOVÁ Veronika MIČAN Jan URMINSKÝ Adam Paulin TOMKOVA Maria SEDLÁK Erik BEDNÁŘ David DAMBORSKÝ Jiří HERNYCHOVÁ Lenka PROKOP Zbyněk

  Article in Periodical

  Biotechnology Advances, year: 2023, volume: 66, edition: September 2023, DOI

• Illuminating the mechanism and allosteric behavior of NanoLuc luciferase

  NEMERGUT Michal PLUSKAL Daniel HORÁČKOVÁ Jana ŠUSTROVÁ Tereza TULIS Jan BÁRTA Tomáš BAATALLAH Racha GAGNOT Glwadys NOVÁKOVÁ Veronika MAJEROVÁ Marika SEDLÁČKOVÁ Karolina MARQUES Sérgio Manuel TOUL Martin DAMBORSKÝ Jiří PROKOP Zbyněk BEDNÁŘ David JANIN Yves L. MAREK Martin

  Article in Periodical

  Nature Communications, year: 2023, volume: 14, edition: 1, DOI

• pyCaverDock: Python implementation of the popular tool for analysis of ligand transport with advanced caching and batch calculation support

  VÁVRA Ondřej BERANEK Jakub ŠTOURAČ Jan SURKOVSKY Martin FILIPOVIČ Jiří DAMBORSKÝ Jiří MARTINOVIC Jan BEDNÁŘ David

  Article in Periodical

  Bioinformatics, year: 2023, volume: 39, edition: 8, DOI

• sMolBoxes: Dataflow Model for Molecular Dynamics Exploration

  ULBRICH Pavol WALDNER Manuela FURMANOVÁ Katarína MARQUES Sérgio Manuel BEDNÁŘ David KOZLÍKOVÁ Barbora BYŠKA Jan

  Article in Periodical

  IEEE Transactions on Visualization and Computer Graphics, year: 2023, volume: 29, edition: 1, DOI