Proteasomes are known to produce major histocompatibility complex (MHC) class I ligands from endogenous antigens. The interferon-␥-inducible proteasome activator PA28 plays an important role in the generation of MHC ligands by proteasomes. Generation of the HLA-A*0201 restricted melanoma antigen TRP2 360 -368 by the proteasome has been shown to be dependent on the function of PA28 in vitro and in vivo (Sun, Y., Sijts, A. J., Song, M., Janek, K., Nussbaum, A. K., Kral, S., Schirle, M., Stevanovic, S., Paschen, A., Schild, H., Kloetzel, P. M., and Schadendorf, D. (2002) Cancer Res. 62, 2875-2882). Here we analyzed the role of the epitope sequence environment in determining this PA28 dependence. Experiments using the melanoma TRP2 288 -296 epitope and the murine cytomegalovirus-derived pp89 epitope precursor peptide for epitope replacement revealed that the TRP2 360 -368 flanking sequences can transfer PA28 dependence onto otherwise PA28 independent epitopes. Moreover, the N-terminal flanking sequence is sufficient to establish PA28 dependence of an epitope by allowing PA28-induced coordinated dual cleavages. These results show that N-terminal flanking sequences strongly influence epitope generation efficiency and that PA28 function is particularly relevant for the generation of normally poorly excised peptide products.The generation of major histocompatibility complex (MHC) 2 class I ligands and the recognition of MHC class I-ligand complexes by CD8ϩ T cells is an effective tool for the elimination of infected or disordered cells from organisms. The ubiquitin-proteasome system represents the major source for MHC class I-presented peptides exposed to CD8ϩ T cells (1). Ubiquitin-proteasome system-mediated peptide generation is influenced by structural changes in the 20S catalytic core (20S proteasome), which occur by exchange of the standard catalytic subunits by immunosubunits. The ATP-dependent 26S proteasome, composed of a 20S core and a 19S regulatory complex, recognizes substrates by a multi-ubiquitin signal. In contrast, 20S proteasomes can accept larger non-ubiquitinated peptides as substrates for ATP-independent degradation (3). However, 20S proteasomes exist in a latent state within the cells. In consequence, proteasome activity and function is regulated in part by modulating substrate entry by the PA28 complex, which attaches ATP-independent to the outer ␣-rings of the 20S proteasome. Detailed kinetic analysis using fluorogenic peptide substrates has shown that activation of the 20S proteasome by PA28 occurs by facilitating either substrate entry and/or product exit, with no effects on the active sites (3). In support, structural analyses have demonstrated that attachment of the activator to the 20S core leads to the opening of the central gate of the ␣-ring (4).The expression of PA28 is constitutively enhanced in cells with specialized antigen-presenting function and is induced by stimulation of cells with interferon-␥. The presentation of a number of viral MHC class I epitopes is enhanced in the presence...