Imods: Fast Exploration of Macromolecular Collective Motions

Abstract

iModS is a web-based tool to approximate protein and nucleic acid flexibility using normal mode analysis in internal coordinates [1]. Given an input structure, the server provides a fast and powerful tool to model, visualize and analyze functional collective motions. Vibrational analysis, motion animations and morphing trajectories can be easily carried out at different scales of resolution. The server is very versatile, non-specialists can rapidly characterize potential conformational changes whereas advanced users can select between multiple coarse-grained representations and elastic network potentials. It includes advanced visualization capabilities for illustrating molecular flexibility based on affine-models and vector field representations. The visualization engine is also compatible with HTML5 and WebGL capabilities ensuring full accessibility to all devices. The web server can be freely accessed at http://imods.chaconlab.org.1. Lopez-Blanco JR, Garzon JI, Chacon P. (2011) iMod: multipurpose normal mode analysis in internal coordinates. Bioinformatics. 27 (20): 2843-2850.