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Pathways and mechanisms for product release in the engineered haloalkane dehalogenases explored using classical and random acceleration molecular dynamics simulations.
Klvana M, Pavlova M, Koudelakova T, Chaloupkova R, Dvorak P, Prokop Z, Stsiapanava A, Kuty M, Kuta-Smatanova I, Dohnalek J, Kulhanek P, Wade RC, Damborsky J. Klvana M, et al. Among authors: dohnalek j. J Mol Biol. 2009 Oct 9;392(5):1339-56. doi: 10.1016/j.jmb.2009.06.076. Epub 2009 Jul 3. J Mol Biol. 2009. PMID: 19577578
Cold-active enzymes studied by comparative molecular dynamics simulation.
Spiwok V, Lipovová P, Skálová T, Dusková J, Dohnálek J, Hasek J, Russell NJ, Králová B. Spiwok V, et al. Among authors: dohnalek j. J Mol Model. 2007 Apr;13(4):485-97. doi: 10.1007/s00894-006-0164-5. Epub 2007 Jan 18. J Mol Model. 2007. PMID: 17235516
PAIREF: paired refinement also for Phenix users.
Malý M, Diederichs K, Dohnálek J, Kolenko P. Malý M, et al. Among authors: dohnalek j. Acta Crystallogr F Struct Biol Commun. 2021 Jul 1;77(Pt 7):226-229. doi: 10.1107/S2053230X21006129. Epub 2021 Jun 29. Acta Crystallogr F Struct Biol Commun. 2021. PMID: 34196613 Free PMC article.
Paired refinement under the control of PAIREF.
Malý M, Diederichs K, Dohnálek J, Kolenko P. Malý M, et al. Among authors: dohnalek j. IUCrJ. 2020 Jun 10;7(Pt 4):681-692. doi: 10.1107/S2052252520005916. eCollection 2020 Jul 1. IUCrJ. 2020. PMID: 32695415 Free PMC article.
Soluble recombinant CD69 receptors optimized to have an exceptional physical and chemical stability display prolonged circulation and remain intact in the blood of mice.
Vanek O, Nálezková M, Kavan D, Borovicková I, Pompach P, Novák P, Kumar V, Vannucci L, Hudecek J, Hofbauerová K, Kopecký V Jr, Brynda J, Kolenko P, Dohnálek J, Kaderávek P, Chmelík J, Gorcík L, Zídek L, Sklenár V, Bezouska K. Vanek O, et al. Among authors: dohnalek j. FEBS J. 2008 Nov;275(22):5589-606. doi: 10.1111/j.1742-4658.2008.06683.x. FEBS J. 2008. PMID: 18959746 Free article.
116 results