Close-up of the peptide-binding site of TCR clone 5W38.

The green zone encompasses the peptide's aspartate residues 4 and 5 interacting with the N and J fragments of the clone. Arginine in the NDN region of the Vβ chain and the first serine residue of the Jα seem of particular relevance. The blue zone highlights a more lipophilic zone consisting of leucine 7 of the peptide and the valine-alanine-leucine tripeptide in the NDN fragment of the Vβ chain. The red area shows the potential interaction between histidine 3 of the peptide and an arginine in the CDR3 Vα fragment GARGWEN. Peptide and protein backbone are in yellow, and the amino acid side chains are in half-bond color, respectively.