List of works - David Bednář

AggreProt: a web server for predicting and engineering aggregation prone regions in proteins

scientific article published in 2024

CAVER Analyst 1.0: graphic tool for interactive visualization and analysis of tunnels and channels in protein structures.

scientific article

CAVER Analyst 2.0: analysis and visualization of channels and tunnels in protein structures and molecular dynamics trajectories

scientific article published on 01 October 2018

CalFitter: a web server for analysis of protein thermal denaturation data.

scientific article published in July 2018

Caver Web 1.0: identification of tunnels and channels in proteins and analysis of ligand transport

scientific article published on 01 July 2019

CaverDock: A Novel Method for the Fast Analysis of Ligand Transport

scientific article published on 26 March 2019

CaverDock: a molecular docking-based tool to analyse ligand transport through protein tunnels and channels

scientific article published on 01 December 2019

Computational Study of Protein-Ligand Unbinding for Enzyme Engineering

scientific article published on 01 January 2018

Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2.

scientific article published on 26 December 2017

Conformational changes allow processing of bulky substrates by a haloalkane dehalogenase with a small and buried active site

scientific article published on 20 July 2018

Different Structural Origins of the Enantioselectivity of Haloalkane Dehalogenases toward Linear β-Haloalkanes: Open-Solvated versus Occluded-Desolvated Active Sites.

scientific article published on 23 March 2017

Engineering enzyme access tunnels

scientific article published on 23 April 2019

EnzymeMiner: automated mining of soluble enzymes with diverse structures, catalytic properties and stabilities

scientific article published on 11 May 2020

FireProt: Energy- and Evolution-Based Computational Design of Thermostable Multiple-Point Mutants

scientific article published on 3 November 2015

FireProt: web server for automated design of thermostable proteins

scientific article published on 26 April 2017

HotSpot Wizard 3.0: web server for automated design of mutations and smart libraries based on sequence input information.

scientific article published in July 2018

LoopGrafter: a web tool for transplanting dynamical loops for protein engineering

scientific article published on 14 April 2022

Molecular Gating of an Engineered Enzyme Captured in Real Time

scientific article published on 3 December 2018

Site-Specific Analysis of Protein Hydration Based on Unnatural Amino Acid Fluorescence

scientific article published on 09 April 2015

Structural Biology and Protein Engineering of Thrombolytics

scientific article published on 02 July 2019

Substrate inhibition by the blockage of product release and its control by tunnel engineering

scientific article published on 11 January 2021

List of works by David Bednář