Erythromycin binds to a single site on the bacterial 50S ribosomal subunit and perturbs protein synthesis. However, erythromycin contains desosamine and thus exists in both protonated (>96%) and neutral (<4%) forms at physiological pH because of the pKa of the dimethylamino group. We therefore examined the relative roles of both forms in binding to ribosomes isolated from two species each of gram-positive and gram-negative bacteria. We developed a system to directly measure the forward (association) rate constant of formation of the macrolide-ribosome complex, and we have measured both the forward and reverse (dissociation) rate constants as a function of pH. Forward rate constants and binding affinity did not correlate with pH when the interaction of erythromycin with ribosomes from both gram-positive and gram-negative bacteria was examined, demonstrating that the protonated form of this macrolide binds to ribosomes. Conversely, the neutral form of macrolide cannot be the sole binding species and appears to bind with the same kinetics as the protonated form.Forward rate constants were 3-to 4-fold greater at physiological pH, and binding affinity calculated from rate constants was 5-to 10-fold greater than previously estimated. Similar results were obtained with azithromycin, a novel 15-membered macrolide that contains an additional tertiary amine in the macrolide ring. Ribosomeand macrolide-specific kinetic parameters were demonstrated at neutral pH and may be related to the potency of the two macrolides against gram-positive and gram-negative bacteria.Erythromycin has been studied and used for antibacterial chemotherapy for over 30 years. Initial efforts were directed towards determination of its mode of action and efficacy in clearing bacterial infections. These early investigations showed that erythromycin was a very safe and effective agent for treating infection due to susceptible bacteria and that its mode of action involved binding to bacterial 50S ribosomal subunits (11, 13) with resultant perturbation of protein synthesis (1, 12). Although the details regarding perturbation of ribosome function are still not entirely understood, binding to a single site on the 50S ribosomal subunit has been firmly established by independent analysis (7-10, 13, 20).Once the existence of the binding site on the 50S subunit was demonstrated, studies shifted to a more detailed evaluation of the kinetic parameters involved. Initial determinations of dissociation constants for the erythromycin-ribosome complex ranged from 10-6 to 10-8 M (3, 4, 10, 13, 16, 20), and the specific dissociation (reverse) rate constant of the [14C]erythromycin-Escherichia coli ribosome complex was 0.15 min-' (16). The study that found the latter result gave only a calculated association (forward) rate constant, 1.5 x 107 liters mol-1 min-', because the forward rate was too fast to be measured under the experimental conditions used. The measured forward rate constants were 1.25 x 105 and 1.36 x 106 liters mol-1 min-' for 50S subunits and 70S ribo...