David Bednář

David Bednář

UNVERIFIED PROFILE

Are you David Bednář?   Register this Author

Register author
David Bednář

David Bednář

Publications by authors named "David Bednář"

Are you David Bednář?   Register this Author

14Publications

156Reads

-Profile Views

Engineering enzyme access tunnels.

Biotechnol Adv 2019 Apr 23. Epub 2019 Apr 23.

Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Faculty of Science, Masaryk University, Kamenice 5, 625 00 Brno, Czech Republic; International Clinical Research Center, St. Anne's University Hospital Brno, Pekarska 53, 656 91 Brno, Czech Republic. Electronic address:

View Article

Download full-text PDF

Source
https://linkinghub.elsevier.com/retrieve/pii/S07349750193006
Publisher Site
http://dx.doi.org/10.1016/j.biotechadv.2019.04.008DOI Listing
April 2019

Computational Study of Protein-Ligand Unbinding for Enzyme Engineering.

Front Chem 2018 8;6:650. Epub 2019 Jan 8.

Loschmidt Laboratories, Department of Experimental Biology and Research Centre for Toxic Compounds in the Environment RECETOX, Faculty of Science, Masaryk University, Brno, Czechia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.3389/fchem.2018.00650DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6331733PMC
January 2019

Molecular Gating of an Engineered Enzyme Captured in Real Time.

J Am Chem Soc 2018 Dec 14;140(51):17999-18008. Epub 2018 Dec 14.

J. Heyrovsky Institute of Physical Chemistry of the ASCR , v. v. i., Dolejskova 3 , 182 23 Prague 8 , Czech Republic.

View Article

Download full-text PDF

Source
http://pubs.acs.org/doi/10.1021/jacs.8b09848
Publisher Site
http://dx.doi.org/10.1021/jacs.8b09848DOI Listing
December 2018

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

Nucleic Acids Res 2018 Jul;46(W1):W344-W349

Loschmidt Laboratories, Department of Experimental Biology and Research Centre for Toxic Compounds in the Environment (RECETOX), Faculty of Science, Masaryk University, Brno, Czech Republic.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gky358DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6031030PMC
July 2018

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

Nucleic Acids Res 2018 Jul;46(W1):W356-W362

Loschmidt Laboratories, Department of Experimental Biology, Masaryk University, 62500 Brno, Czech Republic.

View Article

Download full-text PDF

Source
https://academic.oup.com/nar/article/46/W1/W356/5001543
Publisher Site
http://dx.doi.org/10.1093/nar/gky417DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6030891PMC
July 2018

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

J Biol Chem 2018 07 1;293(29):11505-11512. Epub 2018 Jun 1.

From the Loschmidt Laboratories, Department of Experimental Biology, Research Centre for Toxic Compounds in the Environment (RECETOX), Masaryk University, Kamenice 5/A13, 625 00 Brno, Czech Republic and

View Article

Download full-text PDF

Source
http://www.jbc.org/lookup/doi/10.1074/jbc.RA117.000328
Publisher Site
http://dx.doi.org/10.1074/jbc.RA117.000328DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6065182PMC
July 2018

Computer-assisted engineering of hyperstable fibroblast growth factor 2.

Biotechnol Bioeng 2018 04 24;115(4):850-862. Epub 2018 Jan 24.

Faculty of Science, Department of Experimental Biology, Loschmidt Laboratories, Centre for Toxic Compounds in the Environment RECETOX, Masaryk University, Brno, Czech Republic.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1002/bit.26531DOI Listing
April 2018

FireProt: web server for automated design of thermostable proteins.

Nucleic Acids Res 2017 Jul;45(W1):W393-W399

Loschmidt Laboratories, Department of Experimental Biology, Masaryk University, Brno, Czech Republic.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkx285DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5570187PMC
July 2017

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

Angew Chem Int Ed Engl 2017 04 23;56(17):4719-4723. Epub 2017 Mar 23.

Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Faculty of Science, Masaryk University, Kamenice 5, 625 00, Brno, Czech Republic.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1002/anie.201611193DOI Listing
April 2017

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

PLoS Comput Biol 2015 Nov 3;11(11):e1004556. Epub 2015 Nov 3.

Loschmidt Laboratories, Department of Experimental Biology and Research Centre for Toxic Compounds in the Environment RECETOX, Masaryk University, Brno, Czech Republic; International Clinical Research Center, St. Anne's University Hospital Brno, Brno, Czech Republic; Enantis, Ltd., Brno, Czech Republic.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pcbi.1004556DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4631455PMC
November 2015

Site-specific analysis of protein hydration based on unnatural amino acid fluorescence.

J Am Chem Soc 2015 Apr 9;137(15):4988-92. Epub 2015 Apr 9.

‡Loschmidt Laboratories, Department of Experimental Biology and Research Centre for Toxic Compounds in the Environment RECETOX, Faculty of Science, Masaryk University, Kamenice 5/A13, 625 00 Brno, Czech Republic.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1021/jacs.5b01681DOI Listing
April 2015

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

Bioinformatics 2014 Sep 29;30(18):2684-5. Epub 2014 May 29.

Department of Computer Graphics and Design, Human Computer Interaction Laboratory, Faculty of Informatics, Masaryk University, Botanicka 68a, 602 00 Brno, Loschmidt Laboratories, Department of Experimental Biology and Research Centre for Toxic Compounds in the Environment RECETOX, Faculty of Science, Masaryk University, Kamenice 5/A13, 625 00 Brno and Department of Computer Science and Engineering, Faculty of Applied Sciences, University of West Bohemia, Univerzitni 8, 306 14 Plzen, Czech Republic.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/btu364DOI Listing
September 2014