Extended Data Fig. 9: Small ligand-binding pockets in the ribosomal exit tunnel.
From: Ornithine capture by a translating ribosome controls bacterial polyamine synthesis
Overview and close-up view of a cross-section of the E. coli 70S ribosomal exit tunnel showing the L-ornithine molecule observed in this work (orange) together with small molecules that are known to bind to the ribosomal exit tunnel: blasticidin S (PDB: 4v9q, dark blue)55, chloramphenicol (PDB: 4v7w, light green)56, clindamycin (PDB: 4v7v, magenta)57, dalfopristin (PDB: 4u24, light blue)45, erythromycin (PDB: 4v7u, purple)57, hygromycin (PDB: 5dox, red)58, linezolid (PDB: 3dll, pink)59, puromycin (PDB: 1q82, cyan)60, sparsomycin (PDB: 1njn, dark green)61 and tryptophan (PDB: 4uy8, yellow)17. The different regions of the tunnel are highlighted: the tRNA binding pocket (red), the peptidyl transferase center (PTC) (orange), the upper tunnel (yellow), the constriction formed by uL22 and uL4 (green) and the lower tunnel (blue).
