We have investigated the existence, molecular composition, and benzodiazepine binding properties of native cortical α1-α3 γ- aminobutyric acid(A) (GABA(A)) receptors using subunit-specific antibodies. The co-existence of α1 and α3 subunits in native GABA(A) receptors was demonstrated by immunoblot analysis of the anti-α1- or anti-α3- immunopurified receptors and by immunoprecipitation experiments of the [3H]zolpidem binding activity. Furthermore, immunodepletion experiments indicated that the α1-α3 GABA(A) receptors represented 54.7 ± 5.0 and 23.6 ± 3.3% of the α3 and α1 populations, respectively. Therefore, α1 and α3 subunits are associated in the same native GABA(A) receptor complex, but, on the other hand, these α1-α3 GABA(A) receptors from the cortex constitute a large proportion of the total α3 population and a relatively minor component of the α1 population. The pharmacological analysis of the α1- or α3-immunopurified receptors demonstrated the presence of two different benzodiazepine binding sites in each receptor population with high (type I binding sites) and low (type II binding sites) affinities for zolpidem and Cl 218,872. These results indicate the existence of native GABA(A) receptors possessing both α1 and α3 subunits, with α1 and α3 subunits expressing their characteristic benzodiazepine pharmacology. The molecular characterization of the anti-α1-anti-α3 double-Immunopurified receptors demonstrated the presence of stoichiometric amounts of α1 and α3 subunits, associated with α(2/3), and γ2 subunits. The pharmacological analysis of α1-α3 GABA(A) receptors demonstrated that, despite the fact that each α subunit retained its benzodiazepine binding properties, the relative proportion between type I and II binding sites or between 51- and 59-61-kDa [3H]Ro15-4513-photolabeled peptides was 70:30. Therefore, the α1 subunit is pharmacologically predominant over the α3 subunit. These results indicate the existence of active and nonactive α subunits in the native α1-α3 GABA(A) receptors from rat corte
