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CAVER Analyst 2.0: analysis and visualization of channels and tunnels in protein structures and molecular dynamics trajectories.
Jurcik A, Bednar D, Byska J, Marques SM, Furmanova K, Daniel L, Kokkonen P, Brezovsky J, Strnad O, Stourac J, Pavelka A, Manak M, Damborsky J, Kozlikova B. Jurcik A, et al. Among authors: bednar d. Bioinformatics. 2018 Oct 15;34(20):3586-3588. doi: 10.1093/bioinformatics/bty386. Bioinformatics. 2018. PMID: 29741570 Free PMC article.
CaverDock: A Novel Method for the Fast Analysis of Ligand Transport.
Filipovic J, Vavra O, Plhak J, Bednar D, Marques SM, Brezovsky J, Matyska L, Damborsky J. Filipovic J, et al. Among authors: bednar d. IEEE/ACM Trans Comput Biol Bioinform. 2020 Sep-Oct;17(5):1625-1638. doi: 10.1109/TCBB.2019.2907492. Epub 2019 Mar 26. IEEE/ACM Trans Comput Biol Bioinform. 2020. PMID: 30932844
Computational design of enzymes for biotechnological applications.
Planas-Iglesias J, Marques SM, Pinto GP, Musil M, Stourac J, Damborsky J, Bednar D. Planas-Iglesias J, et al. Among authors: bednar d. Biotechnol Adv. 2021 Mar-Apr;47:107696. doi: 10.1016/j.biotechadv.2021.107696. Epub 2021 Jan 26. Biotechnol Adv. 2021. PMID: 33513434 Review.
Mechanism-Based Strategy for Optimizing HaloTag Protein Labeling.
Marques SM, Slanska M, Chmelova K, Chaloupkova R, Marek M, Clark S, Damborsky J, Kool ET, Bednar D, Prokop Z. Marques SM, et al. Among authors: bednar d. JACS Au. 2022 May 18;2(6):1324-1337. doi: 10.1021/jacsau.2c00002. eCollection 2022 Jun 27. JACS Au. 2022. PMID: 35783171 Free PMC article.
147 results