Experimentally based orientational refinement of membrane protein models: A structure for the Influenza A M2 H+ channel

• Published in: Journal of molecular biology 1999-02, Vol.286 (3), p.951-962
• Main Authors: Kukol, A, Adams, P D, Rice, L M, Brunger, A T, Arkin, T I
• Format: Article
• Language: English
• Subjects: Amino Acid Sequence; Humans; Influenza A virus; Influenza A virus - metabolism; Ion Channels - chemistry; Liposomes - metabolism; Membrane Proteins - chemistry; Models, Molecular; Molecular Conformation; Molecular Sequence Data; Peptide Fragments - chemistry; Protein Structure, Secondary; Spectroscopy, Fourier Transform Infrared; Viral Matrix Proteins - chemistry
• ISSN: 0022-2836
• DOI: 10.1006/jmbi.1998.2512

The 97-residue M2 protein from Influenza A virus forms H+-selective ion channels which can be attributed solely to the homo-tetrameric alpha-helical transmembrane domain. Site-directed infrared dichroism spectra were obtained for the transmembrane domain of M2, reconstituted in lipid vesicles. Data analysis yielded the helix tilt angle beta=31.6(+/-6.2) degrees and the rotational pitch angle about the helix axis for residue Ala29 omegaAla29=-59.8(+/-9.9) degrees, whereby omega is defined as zero for a residue located in the direction of the helix tilt. A structure was obtained from an exhaustive molecular dynamics global search protocol in which the orientational data are utilised directly as an unbiased refinement energy term. Orientational refinement not only allowed selection of a unique structure but could also be shown to increase the convergence towards that structure during the molecular dynamics procedure. Encouragingly, the structure obtained is highly consistent with all available mutagenesis and conductivity data and offers a direct chemical insight that relates the altered functionality of the channel to its structure.