NOLB: Nonlinear Rigid Block Normal-Mode Analysis Method

Normal mode analysis of macromolecular systems with the Mobile Block Hessian method

Until recently, normal mode analysis (NMA) was limited to small proteins, not only because the required energy minimization is a computationally exhausting task, but also because NMA requires the expensive diagonalization of a 3Na×3Na matrix with Na the number of atoms. A series of simplified models has been proposed, in particular the RotationTranslation Blocks (RTB) method by Tama et al. for ...

Dynamic Analysis of Linear Structural Systems with Nonlinear Vibrating Isolators Using Mode Superposition Method

Dynamic Analysis of Linear Structural Systems with Nonlinear Vibrating Isolators Using Mode Superposition Method

A perturbation method for optimization of rigid block mechanisms in the kinematic method of limit analysis

Collapse mechanisms consisting of sliding rigid blocks are used widely as the basis for computing bounds on limit loads in geotechnical and structural engineering problems. While these mechanisms are conceptually straightforward to analyze, evaluating kinematically admissible velocities for a particular arrangement of blocks can be a tedious process, and optimizing the geometry of the mechanism...

The subspace iteration method in protein normal mode analysis

Normal mode analysis plays an important role in relating the conformational dynamics of proteins to their biological function. The subspace iteration method is a numerical procedure for normal mode analysis that has enjoyed widespread success in the structural mechanics community due to its numerical stability and computational efficiency in calculating the lowest normal modes of large systems....