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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: brezovsky j. Bioinformatics. 2018 Oct 15;34(20):3586-3588. doi: 10.1093/bioinformatics/bty386. Bioinformatics. 2018. PMID: 29741570 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.
Engineering enzyme stability and resistance to an organic cosolvent by modification of residues in the access tunnel.
Koudelakova T, Chaloupkova R, Brezovsky J, Prokop Z, Sebestova E, Hesseler M, Khabiri M, Plevaka M, Kulik D, Kuta Smatanova I, Rezacova P, Ettrich R, Bornscheuer UT, Damborsky J. Koudelakova T, et al. Among authors: brezovsky j. Angew Chem Int Ed Engl. 2013 Feb 11;52(7):1959-63. doi: 10.1002/anie.201206708. Epub 2013 Jan 9. Angew Chem Int Ed Engl. 2013. PMID: 23303607 No abstract available.
57 results