F 1 F o -ATP synthases play a central role in cellular metabolism, making the energy of the protonmotive force across a membrane available for a large number of energy-consuming processes. We determined the single-particle cryo-EM structure of active dimeric ATP synthase from mitochondria of Polytomella sp. at 2.7-2.8 Å resolution. Separation of 13 well-defined rotary substates by 3D classification provides a detailed picture of the molecular motions that accompany c-ring rotation and result in ATP synthesis. Crucially, the F 1 head rotates along with the central stalk and c-ring rotor for the first ~30° of each 120° primary rotary step. The joint movement facilitates flexible coupling of the stoichiometrically mismatched F 1 and F o subcomplexes. Flexibility is mediated primarily by the interdomain hinge of the conserved OSCP subunit, a well-established target of physiologically important inhibitors. Our maps provide atomic detail of the c-ring/a-subunit interface in the membrane, where protonation and deprotonation of c-ring cGlu111 drives rotary catalysis. An essential histidine residue in the lumenal proton access channel binds a strong non-peptide density assigned to a metal ion that may facilitate c-ring protonation, as its coordination geometry changes with c-ring rotation. We resolve ordered water molecules in the proton access and release channels and at the gating aArg239 that is critical in all rotary ATPases. We identify the previously unknown ASA10 subunit and present complete de novo atomic models of subunits ASA1-10, which make up the two interlinked peripheral stalks that stabilize the Polytomella ATP synthase dimer.
One Sentence Summary:Mechanisms of proton translocation and flexible F 1 -F o coupling by rotary substates in a mitochondrial ATP synthase dimer
Main Text:Mitochondria carry out controlled oxidation of reduced substrates to generate an electrochemical gradient across the inner mitochondrial membrane. Movement of protons down the gradient through the F 1 F o -ATP synthase drives the production of the soluble energy carrier ATP by rotary catalysis. The ATP synthases consist of two connected nanomotors: the membrane-embedded F o subcomplex where proton translocation generates torque, and the soluble F 1 subcomplex where the