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Biophysical Journal|September 23, 2008
Molecular dynamics simulation and coarse-grained analysis of the Arp2/3 complexJim Pfaendtner, Gregory A VothBiophysical Journal|July 29, 2008
Systematic multiscale parameterization of heterogeneous elastic network models of proteinsEdward Lyman, Jim Pfaendtner, Gregory A VothBiophysical Journal|October 22, 2009
Defining coarse-grained representations of large biomolecules and biomolecular complexes from elastic network modelsZhiyong Zhang, Jim Pfaendtner, Andrea Grafmüller, et al.Proceedings of the National Academy of Sciences of the United States of America|April 7, 2010
Actin filament remodeling by actin depolymerization factor/cofilinJim Pfaendtner, Enrique M De La Cruz, Gregory A VothJournal of Molecular Biology|November 26, 2009
Structure and dynamics of the actin filamentJim Pfaendtner, Edward Lyman, Thomas D Pollard, et al.Proceedings of the National Academy of Sciences of the United States of America|July 22, 2009
Nucleotide-dependent conformational states of actinJim Pfaendtner, Davide Branduardi, Michele Parrinello, et al.Biophysical Journal|September 2, 2008
A systematic methodology for defining coarse-grained sites in large biomoleculesZhiyong Zhang, Lanyuan Lu, Will G Noid, et al.Journal of Molecular Biology|December 31, 2011
Key structural features of the actin filament Arp2/3 complex branch junction revealed by molecular simulationJim Pfaendtner, Niels Volkmann, Dorit Hanein, et al.Methods in Molecular Biology (Clifton, N.J.)|August 10, 2019
Metadynamics to Enhance Sampling in Biomolecular SimulationsJim PfaendtnerJournal of Chemical Theory and Computation|November 18, 2015
Efficient Sampling of High-Dimensional Free-Energy Landscapes with Parallel Bias MetadynamicsJim Pfaendtner, Massimiliano BonomiPageof 60