TMM@: a web application for the analysis of transmembrane helix mobility.

ABSTRACT:

Background

To understand the mechanism by which a protein transmits a signal through the cell membrane, an understanding of the flexibility of its transmembrane (TM) region is essential. Normal Mode Analysis (NMA) has become the method of choice to investigate the slowest motions in macromolecular systems. It has been widely used to study transmembrane channels and pumps. It 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. In particular NMA can be used to study dynamics of TM regions, but no tool making this approach available for non-experts, has been available so far.

Results

We developed the web-application TMM@ (Tran

SUBMITTER: Skjaerven L 

PROVIDER: S-EPMC1949839 | biostudies-literature | 2007 Jul

REPOSITORIES: biostudies-literature