Complexes of gp96/GRP94 and peptides have been shown to elicit immunogenicity. We used fluorescence to understand peptide association with gp96. A pyrenepeptide conjugate was complexed with gp96 under a variety of conditions. At room temperature in low salt (20 mM NaCl), the peptide binds gp96 with a strong affinity (ϳ100 -150 nM) and forms pyrene excimers, suggesting that the peptides were assembled as dimers. In high salt (2.2 M NaCl), although peptide binding was stronger (K a Ϸ 55 nM) than in low salt, pyrene excimers were absent, implying that peptides were farther apart in the complex. Heat shock-activated peptide binding exhibited characteristics of both low salt and high salt modes of binding. Anisotropy and average lifetime of the bound pyrene suggested that peptides were probably located in a solvent-accessible hydrophobic binding pocket in low salt, whereas in high salt, the peptide may be buried in a less hydrophobic (more hydrophilic) environment. These results suggested that peptide-gp96 complexes were assembled in several different ways, depending on the assembly conditions. Resonance energy transfer between the intrinsic tryptophan(s) in gp96 and pyrene suggested that one or more tryptophan residues were within the critical Forster distance of 27-30 Å from the pyrene in the bound peptide. It is proposed that peptides are assembled within higher order gp96 complexes (dimers, etc.) in a hydrophobic pocket and that there may be a conformational change in gp96 leading to an open configuration for peptide loading.Heat shock proteins purified from tumor cells when injected into inbred mice bearing the same specific type of tumor elicit immune response against only that specific tumor (1-4). This paradigm, which has been extended to virus-infected cells (5-7), as well as to a variety of animal cancers (4), forms the basis for a new therapeutic strategy against human cancers using HSPs 1 as vaccines. The HSP-mediated specific immunogenicity has been attributed to endogenous peptides that are noncovalently bound to the HSPs (8). Examples of immunogenic HSP-peptide complexes include gp96 (GRP94), BiP, protein disulfide isomerase, and calreticulin. These stress proteins are abundant and are normally present in the lumen of the endoplasmic reticulum (9). Interestingly, HSPs display dual functionality. On the one hand, they act as molecular chaperones assisting in protein folding, and on the other, they appear to shunt peptides into the immune-response pathways. However, the relationship between the two functions remains unclear. From our perspective, it is the immunogenic function of HSPpeptide complexes that is the most intriguing and is of potential value to human health. The gp96 chaperone system is the most extensively studied from an immunological standpoint (10 -16). Gp96 is an abundant endoplasmic reticulum resident glycoprotein that binds a variety of peptides in vitro with no apparent amino acid sequence specificity (17). Unambiguous confirmation of the immunogenic properties of gp96-peptide complex...