(a) A typical sequence of events that advance the rotor by one step of 2π/12. Consider the initial position of the rotor shown at ➊. The third site from the left is held in the electrostatic well of the stator charge. Step ➊ → ➋: the rotor fluctuates until the third (empty) site thermally jumps out of the potential well of the stator charge. This jump is biased by the transmembrane potential and is helped by the dielectric barrier preventing the first (empty) rotor site from entering the low-dielectric medium of the stator from the right. ➋ → ➌: once the third rotor site is out of the potential well of the stator charge, it quickly binds a sodium ion from the periplasmic (acidic) reservoir. ➌ → ➍: the positive stator charge pulls the empty fourth rotor site into its potential well. Because the second rotor site is neutralized, it can pass through the dielectric barrier. ➍ → ➎: once the second rotor site passes out of the stator its sodium ion quickly dissociates into the cytoplasmic reservoir. Once empty, it cannot go back into the low dielectric rotor–stator interface. ➎ is exactly the same state as ➊, but shifted to the left by one rotor step. (b) Free energy diagram of one rotor site as it passes through the rotor–stator interface. The chemical reactions of ion binding and dissociation to the rotor site switch the potentials seen by the rotor site between that corresponding to an empty site (solid line) and that corresponding to a neutralized site with an ion bound (broken line). Step A → B: the rotor diffuses to the left, bringing the empty (negatively charged) site into the attractive field of the positive stator charge (R227). B → C: once the site is captured, the membrane potential biases the thermal escape of the site to the left (by tilting the potential and lowering the left edge). C → D: the site quickly picks up an ion from the periplasmic channel, which drops the site to the neutralized site potential (broken line). D → E: this allows the occupied site to pass through the dielectric barrier. (If the site diffuses to the right, the ion quickly dissociates from the site as it approaches the stator charge.) E → F: upon exiting the stator the site loses its sodium ion. Now charged, the site sees the stator dielectric barrier, which prevents back-diffusion. The cycle decreases the free energy of the system by an amount equal to the electromotive force: Δμ = Δψ −2.3(RT/F)ΔpNa, where R is the gas constant, F is the Faraday constant, and pNa is the negative log of the Na concentration. The free energy changes accompanying ion binding from the periplasm (P) and dissociation to the cytoplasm (C) are ΔGP = −(2.3RT/F)(pKa − pNaP) and ΔGC = −(2.3RT/F)(pNaC − pKa), respectively.