Conformations and gating mechanism of a Cys-loop receptor pore. (A) Molecular surface of the membrane-embedded domain of chimera H-5′ displaying closed (Left) or open (Right) pore conformations, as viewed from within the membrane. For better viewing, the two frontal subunits have been removed; the carbons of the rear and frontal subunits are colored yellow and white, respectively. In all three subunits, oxygen, nitrogen, sulfur, and hydrogen atoms are colored red, blue, orange, and white, respectively. The black horizontal lines delineate the putative location of the membrane. Image was prepared with pymol. (B) Top view of the closed (Left) vs. open (Right) constriction as seen from the extracellular milieu. The residues from position -5′ to position 2′ are shown as space-filling spheres; carbon, nitrogen, oxygen, and hydrogen atoms are colored white, blue, red, and white, respectively. Note that the side chain of the conserved basic amino acid at position 0′ points outward from the permeation pathway (see also Note 3 in Supporting Text). The helical transmembrane segments (four per each of five differently colored subunits) are shown as cylinders. Image was prepared with pymol. (C) 2D schematic side view corresponding to the proposed gating motions, as shown for two facing subunits. Red and black lines represent the closed and open states, respectively. The plausible axis of tilting (shown as a gray ball) is perpendicular to the viewer and is located between positions 2′ and 9′. The gray arrows indicate the motions around this point, which remains fixed during tilting.