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. Author manuscript; available in PMC: 2012 Sep 2.
Published in final edited form as: J Mol Biol. 2012 Jan 2;416(4):571–578. doi: 10.1016/j.jmb.2011.12.055

Figure 3.

Figure 3

Comparison between the positions of thermorubin and other antibiotics that bind in the region of intersubunit bridge B2a. (a) Orientation of helix 69 with A-site tRNA and viomycin in complex with the 70S ribosome (PDB codes 3KNH and 3KNI). The antibiotic viomycin is shown in tan, A-site tRNA in green and helix 69 in blue. (b) Orientation of helix 69 when thermorubin is bound. A-site tRNA11 (PDB 3KNH) is superimposed to show that reorientation of residue C1914 when thermorubin binds would result in a clash between accommodated A-site tRNA and helix 69 of the 23S RNA. (c) Superimposition of thermorubin with viomycin11 (PDB 3KNH), paromomycin10 (PDB 2WDG) and hygromycin B12 (3DF1), other antibiotics that bind in the vicinity of intersubunit bridge B2a. Each structure was superimposed using the phosphate backbone of the 16S RNA in the program LSQMAN34.