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CAVER Analyst 1.0: graphic tool for interactive visualization and analysis of tunnels and channels in protein structures.
Kozlikova B, Sebestova E, Sustr V, Brezovsky J, Strnad O, Daniel L, Bednar D, Pavelka A, Manak M, Bezdeka M, Benes P, Kotry M, Gora A, Damborsky J, Sochor J. Kozlikova B, et al. Among authors: brezovsky j. Bioinformatics. 2014 Sep 15;30(18):2684-5. doi: 10.1093/bioinformatics/btu364. Epub 2014 May 29. Bioinformatics. 2014. PMID: 24876375
Water will Find Its Way: Transport through Narrow Tunnels in Hydrolases.
Sequeiros-Borja C, Surpeta B, Thirunavukarasu AS, Dongmo Foumthuim CJ, Marchlewski I, Brezovsky J. Sequeiros-Borja C, et al. Among authors: brezovsky j. J Chem Inf Model. 2024 Aug 12;64(15):6014-6025. doi: 10.1021/acs.jcim.4c00094. Epub 2024 Apr 26. J Chem Inf Model. 2024. PMID: 38669675 Free PMC article.
Computational tools for designing and engineering biocatalysts.
Damborsky J, Brezovsky J. Damborsky J, et al. Among authors: brezovsky j. Curr Opin Chem Biol. 2009 Feb;13(1):26-34. doi: 10.1016/j.cbpa.2009.02.021. Epub 2009 Mar 16. Curr Opin Chem Biol. 2009. PMID: 19297237 Review.
Enantioselectivity of haloalkane dehalogenases and its modulation by surface loop engineering.
Prokop Z, Sato Y, Brezovsky J, Mozga T, Chaloupkova R, Koudelakova T, Jerabek P, Stepankova V, Natsume R, van Leeuwen JG, Janssen DB, Florian J, Nagata Y, Senda T, Damborsky J. Prokop Z, et al. Among authors: brezovsky j. Angew Chem Int Ed Engl. 2010 Aug 16;49(35):6111-5. doi: 10.1002/anie.201001753. Angew Chem Int Ed Engl. 2010. PMID: 20645368 No abstract available.
Substrate specificity of haloalkane dehalogenases.
Koudelakova T, Chovancova E, Brezovsky J, Monincova M, Fortova A, Jarkovsky J, Damborsky J. Koudelakova T, et al. Among authors: brezovsky j. Biochem J. 2011 Apr 15;435(2):345-54. doi: 10.1042/BJ20101405. Biochem J. 2011. PMID: 21294712
CAVER 3.0: a tool for the analysis of transport pathways in dynamic protein structures.
Chovancova E, Pavelka A, Benes P, Strnad O, Brezovsky J, Kozlikova B, Gora A, Sustr V, Klvana M, Medek P, Biedermannova L, Sochor J, Damborsky J. Chovancova E, et al. Among authors: brezovsky j. PLoS Comput Biol. 2012;8(10):e1002708. doi: 10.1371/journal.pcbi.1002708. Epub 2012 Oct 18. PLoS Comput Biol. 2012. PMID: 23093919 Free PMC article.
57 results