Fig. 8
From: RPocket: an intuitive database of RNA pocket topology information with RNA-ligand data resources
Examples of ligand-binding pockets. A The 16S RNA bound to gentamicin C1a (PDB: 1BYJ), B the ppGpp riboswitch bound to guanosine tetraphosphate (G4P) (PDB: 6DME), C the SAM-IV riboswitch bound to S-Adenosylmethionine (SAM) (PDB: 6UET). The ligands and pockets are colored in cyan and pink. The van der Waals and stacking interactions are emphasized with red arcs. The hydrogen bonds are shown with green dashed lines. The carbon, nitrogen, and oxygen atoms are shown as black, cream, and red spheres