Author

D. Bednar

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Biochemistry· 2 Bioengineering· 1 Biophysics· 1 Cancer Biology· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 3 Approach:deep learning· 2 Organism:human· 2 Research Focus:protein folding & dynamics· 2 Approach:comparative / phylogenetic analysis· 1 Research Focus:drug response / drug discovery· 1 Assay:multiome· 1 Assay:protein structure· 1

Frequent Co-Authors

J. Damborsky· 5 shared Z. Prokop· 4 shared S. Mazurenko· 3 shared A. Kunka· 2 shared D. Pluskal· 2 shared G. Gagnot· 2 shared J. Planas-Iglesias· 2 shared M. Marek· 2 shared

Activity by Year

2017-2024 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 30 mutual co-author links

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5 shared papersBiochemistry

J. Damborsky

Mutual co-authors in cluster

Author profile →

5 papers

Recent·Most cited

A Computational Workflow for Analysis of Missense Mutations in Precision Oncology

R. T. Khan, P. Pokorna, J. Stourac, S. Borko, I. Arefiev, J. Planas-Iglesias, A. Dobias, G. Pinto, V. Szotkowska, J. Sterba, O. Slaby, J. Damborsky, S. Mazurenko, D. Bednar

This paper presents a bioinformatics pipeline for analyzing missense mutations in oncogenic proteins, providing a probability score for functional impact and suggesting potential FDA/EMA-approved drugs.

bioRxiv · Jun 8, 2024Cancer Biology

CoVAMPnet: Comparative Markov State Analysis for Studying Effects of Drug Candidates on Disordered Biomolecules

S. M. Marques, P. Kouba, A. Legrand, J. Sedlar, L. Disson, J. Planas-Iglesias, Z. Sanusi, A. Kunka, J. Damborsky, T. Pajdla, Z. Prokop, S. Mazurenko, J. Sivic, D. Bednar

This paper introduces CoVAMPnet, a framework to analyze how drug candidates affect disordered biomolecules, finding that TMP and SPA preserve structured conformations of Aβ42.

bioRxiv · Jan 6, 2023Biophysics

Illuminating the mechanism and allosteric behavior of NanoLuc luciferase

M. Nemergut, D. Pluskal, J. Horackova, T. Sustrova, J. Tulis, R. Baatallah, G. Gagnot, V. Novakova, K. Sedlackova, M. Majerova, S. M. Marques, M. Toul, J. Damborsky, Z. Prokop, D. Bednar, , M. Marek

The paper investigates the catalytic mechanism and allosteric behavior of NanoLuc luciferase, revealing how ligand binding at different sites influences luminescence.

bioRxiv · Dec 5, 2022Biochemistry

A catalytic mechanism for Renilla-type bioluminescence

A. Schenkmayerova, M. Toul, D. Pluskal, R. Baatallah, G. Gagnot, G. P. Pinto, V. T. Santana, M. Stuchla, P. Neugebauer, P. Chaiyen, J. Damborsky, D. Bednar, Y. L. Janin, Z. Prokop, M. Marek

This study elucidates the catalytic mechanism of Renilla-type bioluminescence using crystallographic, spectroscopic, and computational methods, revealing key structural and electronic features involved in light emission.

bioRxiv · Feb 9, 2022 · PreprintBiochemistry

Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2

P. Dvorak, D. Bednar, P. Vanacek, L. Balek, L. Eiselleova, V. Stepankova, E. Sebestova, M. Kunova Bosakova, Z. Konecna, S. Mazurenko, A. Kunka, D. Horak, R. Chaloupkova, J. Brezovky, P. Krejci, , J. Damborsky

This paper describes the engineering of a hyperstable FGF2 variant with nine mutations using a computer-assisted strategy, achieving high stability without losing biological function.

bioRxiv · Jan 15, 2017Bioengineering