Article
Extended Data Fig. 8 | Ligand pocket visualizations for T1011. T1011 (PDB
6M9T) is the EP3 receptor bound to misoprostol-FA^55. a, The native structure
showing the ligand in a pocket. b, c, Submission 5 (78.0 GDT TS) by AlphaFold
(b), made without knowledge of the ligand, shows a pocket more similar to the
true pocket than that of the best other submission (322, model 3, 68.7 GDT TS)
(c). Both submissions are aligned to the native protein using the same subset of
residues from the helices close to the ligand pocket and visualized with the
interior pocket together with the native ligand position.