A major problem hampering the development of an effective vaccine against human immunodeficiency virus type 1 (HIV-1) is the resistance of many primary viral isolates to antibody-mediated neutralization. To identify factors responsible for this resistance, determinants of the large differences in neutralization sensitivities of HIV-1 pseudotyped with Env proteins derived from two prototypic clade B primary isolates were mapped. SF162 Env pseudotypes were neutralized very potently by a panel of sera from HIV-infected individuals, while JR-FL Env pseudotypes were neutralized by only a small fraction of these sera. This differential sensitivity to neutralization was also observed for a number of monoclonal antibodies (MAbs) directed against sites in the V2, V3, and CD4 binding domains, despite often similar binding affinities of these MAbs towards the two soluble rgp120s. The neutralization phenotypes were switched for chimeric Envs in which the V1/V2 domains of these two sequences were exchanged, indicating that the V1/V2 region regulated the overall neutralization sensitivity of these Envs. These results suggested that the inherent neutralization resistance of JR-FL, and presumably of related primary isolates, is to a great extent mediated by gp120 V1/V2 domain structure rather than by sequence variations at the target sites. Three MAbs (immunoglobulin G-b12, 2G12, and 2F5) previously reported to possess broad neutralizing activity for primary HIV-1 isolates neutralized JR-FL virus at least as well as SF162 virus and were not significantly affected by the V1/V2 domain exchanges. The rare antibodies capable of neutralizing a broad range of primary isolates thus appeared to be targeted to exceptional epitopes that are not sensitive to V1/V2 domain regulation of neutralization sensitivity.There is a consensus that a broadly neutralizing humoral response is an essential component of a protective human immunodeficiency virus (HIV) vaccine. Unfortunately, current vaccine approaches have not been able to produce such neutralizing responses against primary HIV isolates despite induction of high titers of antibodies, including antibodies capable of neutralizing specific test strains (1,2,11,14,21,25,35,36). Factors that determine the sensitivity of HIV type 1 (HIV-1) isolates to neutralization have not been clearly defined. Earlier studies indicated that X4-tropic laboratory strains in general were highly sensitive to neutralization and that R5-tropic primary isolates were relatively resistant (35, 38). Later evidence showed that neutralization sensitivities differ even among primary isolates (27) and that neutralization sensitivity does not correlate with coreceptor usage (6, 37).One of the factors that can contribute to poor neutralization of primary HIV isolates in standard assays is the presence of viral variants whose neutralization epitopes are absent or modified in ways that result in reduced affinity towards the antibodies being tested. This complexity can be avoided by the use of single-cycle viral transduction a...