WEBnm@: a web application for normal mode analyses of proteins.

ABSTRACT:

Background

Normal mode analysis (NMA) has become the method of choice to investigate the slowest motions in macromolecular systems. NMA is especially useful for large biomolecular assemblies, such as transmembrane channels or virus capsids. NMA relies on the hypothesis that the vibrational normal modes having the lowest frequencies (also named soft modes) describe the largest movements in a protein and are the ones that are functionally relevant.

Results

We developed a web-based server to perform normal modes calculations and different types of analyses. Starting from a structure file provided by the user in the PDB format, the server calculates the normal modes and subsequently offers the user a series of automated calculations; normalized squared atomic displacements, vect

SUBMITTER: Hollup SM 

PROVIDER: S-EPMC1274249 | biostudies-literature | 2005 Mar

REPOSITORIES: biostudies-literature