Bending elasticity of anti-parallel beta-sheets.
Using a coarse-grained elastic model, we examine the bending properties of anti-parallel beta-sheets comprised of uniform amino-acid residues in vacuum as well as in explicit solvent. By comparing the conformational probability of the beta-sheet from molecular dynamics simulations with the same quantities obtained from the coarse-grained model, we compute the elastic bending constant, kappa. Equilibrium fluctuations of the beta-sheet and its response to external forces are well reproduced by a model with a uniform isotropic bending constant. An anisotropic bending model is also investigated, although the computed anisotropy is relatively weak and most of the observed properties are well described by an isotropic model. The presence of explicit solvent also lowers the bending constant. The sequence dependence of our result and its implications in protein conformational dynamics are discussed.
Choe
Seungho
S
Department of Mechanical Engineering, and Whitaker Institute of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland, USA.
Sun
Sean X
SX
D000409:Alanine / Q000737:chemistry; D016880:Anisotropy; D003198:Computer Simulation; D004548:Elasticity; D005998:Glycine / Q000737:chemistry; D008954:Models, Biological; D010100:Oxygen / Q000737:chemistry; D017433:Protein Structure, Secondary; D011506:Proteins / Q000737:chemistry*; D006180:Proton-Translocating ATPases / Q000737:chemistry
D011506:Proteins; D006180:Proton-Translocating ATPases; D000409:Alanine; D010100:Oxygen; D005998:Glycine