Pulsed EPR spectroscopy was used to explore the structural neighborhood of the semiquinone (SQ) stabilized at the Q i site of the bc 1 complex of Rhodobacter sphaeroides (EC 1.10.2.2) and to demonstrate that the nitrogen atom of a histidine imidazole group donates an H-bond to the SQ. Crystallographic structures show two different configurations for the binding of ubiquinone at the Q i site of mitochondrial bc 1 complexes in which histidine (His-201 in bovine sequence) is either a direct H-bond donor or separated by a bridging water. The paramagnetic properties of the SQ formed at the site provide an independent method for studying the liganding of this intermediate species. The antimycin-sensitive SQ formed at the Q i site by either equilibrium redox titration, reduction of the oxidized complex by ascorbate, or addition of decylubihydroquinone to the oxidized complex in the presence of myxothiazol all showed similar properties. The electron spin echo envelope modulation spectra in the 14 N region were dominated by lines with frequencies at 1.7 and 3.1 MHz. Hyperfine sublevel correlation spectroscopy spectra showed that these were contributed by a single nitrogen. Further analysis showed that the 14 N nucleus was characterized by an isotropic hyperfine coupling of ϳ0.8 MHz and a quadrupole coupling constant of ϳ0.35 MHz. The nitrogen was identified as the N-⑀ or N-␦ imidazole nitrogen of a histidine (it is likely to be His-217, or His-201 in bovine sequence). A distance of 2.5-3.1 Å for the O-N distance between the carbonyl of SQ and the nitrogen was estimated. The mechanistic significance is discussed in the context of a dynamic role for the movement of His-217 in proton transfer to the site.The bc 1 complex family of enzymes plays a central role in all the main pathways of energy conversion, being directly responsible for ϳ30% of all the energy transduction of the biosphere (1-3). The complexes in Rhodobacter exemplify the simplest of these enzymes, with only three or four subunits, including the highly conserved catalytic core common to bacterial and mitochondrial complexes. It is generally accepted that the complex operates through a protonmotive Q cycle (2, 4, 5). Three catalytic subunits, cytochrome b, cytochrome c 1 , and the Rieske iron-sulfur protein, house the mechanism. Two separate internal electron transfer chains connect three catalytic sites for external substrates. At one site, cytochrome c 1 is oxidized by cytochrome c 2 . Two catalytic sites in cytochrome b are involved in the oxidation or reduction of ubiquinone. At the quinol oxidizing site, one electron from quinol is passed to the ironsulfur protein, which transfers it to cytochrome c 1 , whereas the semiquinone (SQ) 1 produced is oxidized by another chain consisting of the two b-hemes of cytochrome b in the bifurcated reaction. At the quinone-reducing site (Q i site), electrons from the b-heme chain are used to generate quinol. The integration of the oxidation and reduction reactions with the release or uptake of protons in the aqueous pha...