allostery amyloid bioinformatics books cell-adhesion chaperone chaperonin coarse-grained comparative-modeling computer-programming conformational-change cooperativity crystal-packing cytoskeletal-dynamics denatured-state elastic_network_model electrostatics ensemble experimental flagellar flagellin folding-intermediate folding-nucleus force-probe-md generalized-born go-model high-t-md ig-like implicit-solvent langevin-dynamics long-range-interactions md_analysis_tools mechanical-unfolding mechanotransduction methodology modular molten-globule monte-carlo multi-domain multi-scale nanobiology nma off-lattice-model pca protein-degradation protein-folding protein-interaction protein-mechanics protein-organization protein-secretion protein-stability protein-translocation review salt-bridge science-presentation science-writing self-assembly signaling single-molecule-techniques solvent-effects structure-validation synthetic-biology theoretical ttss two-state web-server