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. 2021 Mar 29;19(6):986–997. doi: 10.1016/j.gpb.2020.05.006

Figure 5.

Figure 5

Ligand-binding pocket of MHC class I proteins

A. Sorafenib bound in the pocket (determined by flexible docking). B. Peptide bound in the pocket (in the crystal structure). The extracellular ligand-binding groove of MHC class I proteins, taken from PDB 3BXN, is shown as green ribbon. In the ligand-binding pocket identified by iDTPnd, apolar atoms, negatively charged atoms, and positively charged atoms are shown in green, blue, and red, respectively. Peptide shown in (B) is a Cathepsin A signal sequence octapeptide.