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Joanna Trylska
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Continuum molecular electrostatics, salt effects, and counterion binding—a review of the Poisson–Boltzmann theory and its modifications
P Grochowski, J Trylska
Biopolymers: Original Research on Biomolecules 89 (2), 93-113, 2008
3112008
Exploring global motions and correlations in the ribosome
J Trylska, V Tozzini, JA McCammon
Biophysical Journal 89 (3), 1455-1463, 2005
1512005
Flap opening dynamics in HIV-1 protease explored with a coarse-grained model
V Tozzini, J Trylska, C Chang, JA McCammon
Journal of structural biology 157 (3), 606-615, 2007
1422007
The influence of macromolecular crowding on HIV-1 protease internal dynamics
DDL Minh, C Chang, J Trylska, V Tozzini, JA McCammon
Journal of the American Chemical Society 128 (18), 6006-6007, 2006
1062006
HIV-1 protease substrate binding and product release pathways explored with coarse-grained molecular dynamics
J Trylska, V Tozzini, AC Chia-en, JA McCammon
Biophysical journal 92 (12), 4179-4187, 2007
992007
Gated binding of ligands to HIV-1 protease: Brownian dynamics simulations in a coarse-grained model
CE Chang, T Shen, J Trylska, V Tozzini, JA McCammon
Biophysical journal 90 (11), 3880-3885, 2006
952006
Coarse‐grained force field for the nucleosome from self‐consistent multiscaling
K Voltz, J Trylska, V Tozzini, V Kurkal‐Siebert, J Langowski, J Smith
Journal of computational chemistry 29 (9), 1429-1439, 2008
932008
The role of hydrogen bonding in the enzymatic reaction catalyzed by HIV‐1 protease
J Trylska, P Grochowski, JA McCammon
Protein science 13 (2), 513-528, 2004
862004
Thermodynamic linkage between the binding of protons and inhibitors to HIV‐1 protease
J Trylska, J Antosiewicz, M Geller, CN Hodge, RM Klabe, MS Head, ...
Protein Science 8 (1), 180-195, 1999
851999
Binding pathways of ligands to HIV‐1 protease: coarse‐grained and atomistic simulations
CEA Chang, J Trylska, V Tozzini, J Andrew McCammon
Chemical biology & drug design 69 (1), 5-13, 2007
822007
Diffusion in crowded biological environments: applications of Brownian dynamics
M Długosz, J Trylska
BMC biophysics 4, 1-9, 2011
792011
Electrostatic properties of cowpea chlorotic mottle virus and cucumber mosaic virus capsids
R Konecny, J Trylska, F Tama, D Zhang, NA Baker, CL Brooks III, ...
Biopolymers: Original Research on Biomolecules 82 (2), 106-120, 2006
792006
Unwrapping of nucleosomal DNA ends: a multiscale molecular dynamics study
K Voltz, J Trylska, N Calimet, JC Smith, J Langowski
Biophysical journal 102 (4), 849-858, 2012
692012
Binding of aminoglycosidic antibiotics to the oligonucleotide A-site model and 30S ribosomal Subunit: Poisson− Boltzmann model, thermal denaturation, and fluorescence studies
G Yang, J Trylska, Y Tor, JA McCammon
Journal of medicinal chemistry 49 (18), 5478-5490, 2006
652006
A new role for Helicobacter pylori urease: contributions to angiogenesis
D Olivera-Severo, AF Uberti, MS Marques, MT Pinto, M Gomez-Lazaro, ...
Frontiers in Microbiology 8, 299313, 2017
632017
Vitamin B12 as a carrier of peptide nucleic acid (PNA) into bacterial cells
M Równicki, M Wojciechowska, AJ Wierzba, J Czarnecki, D Bartosik, ...
Scientific reports 7 (1), 7644, 2017
632017
Dependency map of proteins in the small ribosomal subunit
K Hamacher, J Trylska, JA McCammon
PLoS Computational Biology 2 (2), e10, 2006
602006
Brownian dynamics simulations on CPU and GPU with BD_BOX
M Długosz, P Zieliński, J Trylska
Journal of computational chemistry 32 (12), 2734-2744, 2011
592011
Antibacterial peptide nucleic acids—facts and perspectives
M Wojciechowska, M Równicki, A Mieczkowski, J Miszkiewicz, J Trylska
Molecules 25 (3), 559, 2020
552020
Coarse-grained models to study dynamics of nanoscale biomolecules and their applications to the ribosome
J Trylska
Journal of Physics: Condensed Matter 22 (45), 453101, 2010
552010
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Articles 1–20