Figure 4.

Docking results for each of the described applications of the LightDock Server. Best five LMP1 -TNFR-associated factor 2 (1czy) relaxed models. The receptor is shown as blue spheres while the peptide as orange sticks (A). Top anti-Shh-Shh (antibody–antigen) relaxed model resulting from using only sequence-derived information. The antibody is shown in blue, turquoise, and the antigen (Shh) in orange cartoons (B). The third docking pose closely recapitulates the 3 × 29 crystal structure (C). For comparison purposes, the reference structures are always depicted in pink.