Fig. 2
Structural similarities between PfAMA1 and TgAMA1. A. Illustration of the linear structure of PfAMA1 and TgAMA1 with the amino-acid positions delimiting the ectodomains. B. Three-dimensional structure of PfAMA1 (PDB ref 4R19) in dark blue, TgAMA1 (PDB ref 2X2Z) in cyan and their superposition using PyMOL software. Discontinuous predicted epitopes are indicated in red for PfAMA1 and orange for TgAMA1. RMSD = 2.63 Å; TM-score = 0.86. RMSD compares superpositions of three-dimensional protein structures, atom by atom. The closer this number is to 0, the closer is the structural alignment. RMSD has been associated with a protein structure alignment algorithm (TM-align) based on the TM-score77. This algorithm evaluates the quality of the aligned structures: 0.0 < TM-score < 0.30 = random structural similarity; 0.5 < TM-score < 1.00 = significant structural similarity.
