Nature research paper: Opening of glutamate receptor channel to subconductance levels
ion permeation through the AMPA receptor channel gate in the absence of an applied voltage in the GNGN2 equilibrium structure simulation. The gate region is defined between T625 and T617 . Naion permeating through the gate is shown in green, whereas a Naion crossing through the channel selectivity filter formed by residues Q586 and Q587 is shown in red. The protein is shown as a ribbon and water is shown as red and white ball-and-stick representations.
Water molecules within a 5-Å-radius cylinder centred on the pore gate are displayed as sticks; the Kion is shown in blue and water molecules within 3 Å radius of it are shown in space-filled representation. Each snapshot of the video is the last frame of each umbrella sampling simulation.ion permeation through the gate of the closed C structure. The side chains of T625 and T617 are shown as orange sticks.
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