T he interaction of the MHC molecules and their associated antigenic peptides with the T cell receptor is the pivotal step in the cognate response to foreign antigen (1). Synthetic peptides that correspond to polymorphic and nonpolymorphic regions of the MHC molecule have been demonstrated to be effective inhibitors of the allergic, autoimmune, and alloimmune responses in vitro and in vivo (2,3). Immunomodulatory polymorphic peptides that bind within the groove of the MHC molecule may influence the subsequent response of the T cell by altering the recognition of the MHC-peptide complex. Modification of antigenic peptide sequences by a single amino acid has been shown to change the T cell response qualitatively resulting in partial T cell activation and the production of T cell anergy (4,5). The use of these altered peptide ligands has proved to be an effective means of ameliorating autoimmune diseases in small animal models (6,7). In addition, polymorphic MHC classes I and II peptides, which are known to elicit an antigenic response, inhibit the alloimmune response in vivo after administration via oral, intrathymic, and intranasal routes (8 -10). Manipulation of the immune response by modification of known antigenic peptides is limited by the need to identify the specific autoantigens in the case of autoimmune diseases and by an exhaustive number of potential allogeneic peptides in the case of transplantation.Several peptides derived from nonpolymorphic regions of both MHC classes I and II have been shown to inhibit T cell responses in vitro (11). It is interesting that the binding sites and mechanisms of action of these peptides are remarkably different from each other and from that of polymorphic MHC peptides. The inhibitory effect of the nonpolymorphic MHC class I peptides (ALLOTRAP) and their rationally designed analogues correlated with the induction of heme oxygenase-1 and inhibition of TNF-␣ production in vivo (12). These peptides have been shown to prolong survival in several different small animal transplant models (13-15) and modify disease in a murine model of Crohn's disease (16). Boytim et al. (17) demonstrated that a synthetic MHC class II peptide that corresponds to the ␣1 helix of DQA03011 (DQ 65 to 79) inhibits T cell proliferation in an allele-independent manner in vitro through binding to proliferating cell nuclear antigen and competitive inhibition of binding of p21 to proliferating cell nuclear antigen (18). We have shown previously that a peptide, HLA-DQA1, derived from a conserved region of the HLA-DQ ␣ chain (62 to 77), is an efficient inhibitor of the human, rat, and mouse MLR (19). HLA-DQA1 requires the interaction of T cells and antigenpresenting cells (APC) for its inhibitory action on T cells. HLA-DQA1 peptide induced apoptosis in B cells, macrophages (20), and dendritic cells (our unpublished observations) via a nonclassical, caspase-independent mechanism. In addition to inducing apoptosis in APC, HLA-DQA1 renders T cells unresponsive to further stimulation. We have shown that a lo...