tetano
Editor, Senior Moderator
J Mol Model. 2017 Jul;23(7):212. doi: 10.1007/s00894-017-3389-6. Epub 2017 Jun 23.
[h=1]Decoupled side chain and backbone dynamics for proton translocation - M2 of influenza A.[/h] Kalita MM[SUP]1[/SUP], Fischer WB[SUP]2[/SUP].
[h=3]Author information[/h]
[h=3]Abstract[/h] The 97 amino acid bitopic membrane protein M2 of influenza A forms a tetrameric bundle in which two of the monomers are covalently linked via a cysteine bridge. In its tetrameric assembly the protein conducts protons across the viral envelope and within intracellular compartments during the infectivity cycle of the virus. A key residue in the translocation of the protons is His-37 which forms a planar tetrad in the configuration of the bundle accepting and translocating the incoming protons from the N terminal side, exterior of the virus, to the C terminal side, inside the virus. With experimentally available data from NMR spectroscopy of the transmembrane domains of the tetrameric M2 bundle classical MD simulations are conducted with the protein bundle in different protonation stages in respect to His-37. A full correlation analysis (FCA) of the data sets with the His-37 tetrad either in a fully four times unprotonated or protonated state, assumed to mimic high and low pH in vivo, respectively, in both cases reveal asymmetric backbone dynamics. His-37 side chain rotation dynamics is increased at full protonation of the tetrad compared to the dynamics in the fully unprotonated state. The data suggest that proton translocation can be achieved by decoupled side chain or backbone dynamics. Graphical abstract Visualization of the tetrameric bundle of the transmembrane domains of M2 of influenza A after 200 ns of MD simulations (upper left). The four histidine residues 37 are either not protonated as in M2[SUP]0[/SUP] or fully protonated is in M2[SUP]4+[/SUP]. The asymmetric dynamics of the backbones are shown after a full correlation analysis (FCA) in blue (lower left). The rotational dynamics of the χ2 dihedral angles of the histidines in M2[SUP]0[/SUP] (upper right) are less than those in M2[SUP]4+[/SUP] (lower right).
[h=4]KEYWORDS:[/h] Full correlation analysis; M2 of influenza A; Molecular dynamics simulations; NMR structure; Protein dynamics; Viral channel protein
PMID: 28646429 DOI: 10.1007/s00894-017-3389-6
[h=1]Decoupled side chain and backbone dynamics for proton translocation - M2 of influenza A.[/h] Kalita MM[SUP]1[/SUP], Fischer WB[SUP]2[/SUP].
[h=3]Author information[/h]
[h=3]Abstract[/h] The 97 amino acid bitopic membrane protein M2 of influenza A forms a tetrameric bundle in which two of the monomers are covalently linked via a cysteine bridge. In its tetrameric assembly the protein conducts protons across the viral envelope and within intracellular compartments during the infectivity cycle of the virus. A key residue in the translocation of the protons is His-37 which forms a planar tetrad in the configuration of the bundle accepting and translocating the incoming protons from the N terminal side, exterior of the virus, to the C terminal side, inside the virus. With experimentally available data from NMR spectroscopy of the transmembrane domains of the tetrameric M2 bundle classical MD simulations are conducted with the protein bundle in different protonation stages in respect to His-37. A full correlation analysis (FCA) of the data sets with the His-37 tetrad either in a fully four times unprotonated or protonated state, assumed to mimic high and low pH in vivo, respectively, in both cases reveal asymmetric backbone dynamics. His-37 side chain rotation dynamics is increased at full protonation of the tetrad compared to the dynamics in the fully unprotonated state. The data suggest that proton translocation can be achieved by decoupled side chain or backbone dynamics. Graphical abstract Visualization of the tetrameric bundle of the transmembrane domains of M2 of influenza A after 200 ns of MD simulations (upper left). The four histidine residues 37 are either not protonated as in M2[SUP]0[/SUP] or fully protonated is in M2[SUP]4+[/SUP]. The asymmetric dynamics of the backbones are shown after a full correlation analysis (FCA) in blue (lower left). The rotational dynamics of the χ2 dihedral angles of the histidines in M2[SUP]0[/SUP] (upper right) are less than those in M2[SUP]4+[/SUP] (lower right).
[h=4]KEYWORDS:[/h] Full correlation analysis; M2 of influenza A; Molecular dynamics simulations; NMR structure; Protein dynamics; Viral channel protein
PMID: 28646429 DOI: 10.1007/s00894-017-3389-6