T cell epitopes for several autoantigens predicted by the ProPred server. (a) histone H1b (Swiss-Prot: P10412). (b) U1 RNP70K (Swiss-Prot: P08621). (c) Ro 52K (Swiss-Prot: P19474). (d) Sm B/B' (Swiss-Prot: P14678). Only four alleles are shown for each protein for the HLA antigens (from the top down): DRB1_0101; DRB1_0102; DRB_0301; and DRB1_0305. The patterns for the remaining MHC II alleles follow the same general trends. The black bars highlight the long disordered regions of the sequence as pictured in Fig. 2. The horizontal dotted red line is the threshold score-here set at the default value of 3%, which is used to differentiate between binders and non-binders. A threshold of 3% means that the protein sequence belongs to the 3% best scoring natural peptides. The lower the threshold percentage the fewer false positive peptides will be predicted to be T cell epitopes.