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. Author manuscript; available in PMC: 2013 Mar 20.
Published in final edited form as: Biochemistry. 2012 Mar 7;51(11):2199–2212. doi: 10.1021/bi201888a

Figure 9. Pore-lining residues predicted by the molecular model and confirmed by cysteine-scanning, showing that the cut-off in reactivity of engineered cysteines toward externally-applied, channel-impermeant, thiol-directed reagents coincides with the predicted narrowing of the pore.

Figure 9

Sites in TM 6 (green) and TM 12 (blue) are shown in the context of two views (front, back) of the 8 ns MD frame together with the pore casting (gray mesh) and the lipid bilayer (tan shading). Scale bar is 10 Å. Red/pink (Dual colors for clarity of visualization): Residues where cysteines were reactive toward both channel-permeant and channel-impermeant reagents. Yellow/brown (Dual colors for clarity of visualization): Residues where cysteines were reactive toward only channel-permeant reagents. Cut-off in reactivity toward externally-applied, channel-impermeant reagents aligns with a dramatic narrowing of the pore interior.