PubRank

Joanna Trylska

Author PubWeight™ 27.91‹?›

Top papers

Rank Title Journal Year PubWeight™‹?›
1 Continuum molecular electrostatics, salt effects, and counterion binding--a review of the Poisson-Boltzmann theory and its modifications. Biopolymers 2008 2.55
2 Gated binding of ligands to HIV-1 protease: Brownian dynamics simulations in a coarse-grained model. Biophys J 2006 1.42
3 The influence of macromolecular crowding on HIV-1 protease internal dynamics. J Am Chem Soc 2006 1.37
4 Flap opening dynamics in HIV-1 protease explored with a coarse-grained model. J Struct Biol 2006 1.17
5 Electrostatic properties of cowpea chlorotic mottle virus and cucumber mosaic virus capsids. Biopolymers 2006 1.08
6 Diffusion in crowded biological environments: applications of Brownian dynamics. BMC Biophys 2011 1.06
7 Binding pathways of ligands to HIV-1 protease: coarse-grained and atomistic simulations. Chem Biol Drug Des 2007 1.05
8 Coarse-grained force field for the nucleosome from self-consistent multiscaling. J Comput Chem 2008 1.01
9 Unwrapping of nucleosomal DNA ends: a multiscale molecular dynamics study. Biophys J 2012 1.00
10 Dependency map of proteins in the small ribosomal subunit. PLoS Comput Biol 2006 0.97
11 Molecular dynamics study of the ribosomal A-site. J Phys Chem B 2008 0.96
12 Binding of aminoglycosidic antibiotics to the oligonucleotide A-site model and 30S ribosomal subunit: Poisson-Boltzmann model, thermal denaturation, and fluorescence studies. J Med Chem 2006 0.94
13 Secondary structures of native and pathogenic huntingtin N-terminal fragments. J Phys Chem B 2011 0.92
14 Aminoglycoside association pathways with the 30S ribosomal subunit. J Phys Chem B 2009 0.87
15 Comparing aminoglycoside binding sites in bacterial ribosomal RNA and aminoglycoside modifying enzymes. Proteins 2012 0.86
16 Electrostatic similarity of proteins: application of three dimensional spherical harmonic decomposition. J Chem Phys 2008 0.85
17 Contributions of far-field hydrodynamic interactions to the kinetics of electrostatically driven molecular association. J Phys Chem B 2012 0.84
18 Brownian dynamics simulations on CPU and GPU with BD_BOX. J Comput Chem 2011 0.83
19 pH-dependent association of proteins. The test case of monoclonal antibody HyHEL-5 and its antigen hen egg white lysozyme. J Phys Chem B 2009 0.82
20 Molecular dynamics of potential rRNA binders: single-stranded nucleic acids and some analogues. J Phys Chem B 2010 0.81
21 RedMD--reduced molecular dynamics package. J Comput Chem 2009 0.80
22 Understanding the origins of bacterial resistance to aminoglycosides through molecular dynamics mutational study of the ribosomal A-site. PLoS Comput Biol 2011 0.80
23 The Poisson-Boltzmann model for tRNA: Assessment of the calculation set-up and ionic concentration cutoff. J Comput Chem 2008 0.80
24 Association of aminoglycosidic antibiotics with the ribosomal A-site studied with Brownian dynamics. J Chem Theory Comput 2008 0.79
25 Quantum mechanical studies of lincosamides. J Mol Model 2011 0.78
26 Brownian dynamics study of the association between the 70S ribosome and elongation factor G. Biopolymers 2011 0.77
27 Search for novel aminoglycosides by combining fragment-based virtual screening and 3D-QSAR scoring. J Chem Inf Model 2009 0.76
28 Molecular dynamics of ribosomal elongation factors G and Tu. Eur Biophys J 2010 0.76
29 Role of S-turn2 in the structure, dynamics, and function of mitochondrial ribosomal A-site. A bioinformatics and molecular dynamics simulation study. J Phys Chem B 2014 0.76