Publications
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Modeling of Disordered Protein Structures Using Monte Carlo Simulations and Knowledge-Based Statistical Force FieldsInternational Journal of Molecular Sciences 20, , 2019.
Modeling of Protein Structural Flexibility and Large-Scale Dynamics: Coarse-Grained Simulations and Elastic Network ModelsInternational Journal of Molecular Sciences 19, , 2018.
Mutation goals in the vitamin D receptor predicted by computational methods.The Journal of Steroid Biochemistry and Molecular Biology 183, 210-220, 2018.
Modeling EphB4-EphrinB2 protein–protein interaction using flexible docking of a short linear motifBioMedical Engineering OnLine, 16:71 , 2017.
Mechanical unfolding of DDFLN4 studied by the coarse-grained knowledge-based CABS modelTASK Quarterly 18, 373–378, 2014.
Mechanism of Folding and Binding of an Intrinsically Disordered Protein as Revealed by Ab Initio SimulationsJournal of Chemical Theory and Computation 10, 2224–2231, 2014.
Modeling Protein Structures and their Complexes with Sparse Experimental DataFrom Computational Biophysics to Systems Biology (CBSB11) Proceedings 8, 49–52, 2012.
Modelowanie Molekularne Białek Błonowych (Molecular Modeling of Membrane Proteins)Na pograniczu chemii i biologii (At the Treshold of Chemistry and Biology) vol. XXVIII, H. Koroniak, J. Barciszewski eds, Wydawnictwo Naukowe UAM, Poznań 223-238, 2012.
Multiscale Approach to Thermodynamics and Dynamics of a beta-Hairpin FoldingFrom Computational Biophysics to Systems Biology (CBSB11) Proceedings 8, 213–216, 2012.
Multiscale approach to protein folding dynamicsMultiscale Approaches to Protein Modeling 281-294, 2011.
Multiscale protein and peptide dockingMultiscale Approaches to Protein Modeling 21-34, 2011.
Mechanical unfolding of acylphosphatase studied by single-molecule force spectroscopy and MD simulationsBiophys J 99, 238-47, 2010.
MSITE: a new computational tool for comparison of homological proteins in holo formThe Journal of Steroid Biochemistry and Molecular Biology 121, 34-42, 2010.
Mechanical strength of 17,134 model proteins and cysteine slipknots.PLoS Comput Biol 5, e1000547, 2009.
Mechanical stretching of proteins—a theoretical survey of the Protein Data BankJournal of Physics: Condensed Matter 19, , 2007.
Modeling protein structure, dynamics and thermodynamics with reduced representation of conformational spaceNIC Workshop 2006: From Computational Biophysics to System Biology 34, 21-28, 2006.
A minimal proteinlike lattice model: an alpha-helix motifThe Journal of Chemical Physics 122, 214915, 2005.
Model of three-dimensional structure of VDR bound with Vitamin D3 analogs substituted at carbon-2The Journal of Steroid Biochemistry and Molecular Biology 89-90, 107-10, 2004.
A minimal physically realistic protein-like lattice model: designing an energy landscape that ensures all-or-none folding to a unique native stateBiophysical Journal 84, 1518–26, 2003.
Monte Carlo simulation of designed helical proteinsActa Poloniae Pharmaceutica – Drug Research 57 Suppl, 119-21, 2000.