The structural analysis of atomic models of the translocational ribosome.

1In TIPOST(2tRNAs), two tRNAs are present in ap/P and pe/E hybrid states, where the lowercase and uppercase letters indicate tRNA contacts on the small and large subunit, respectively, in the following order: 30S head (a-site or p-site), 30S body/platform (p-site or e-site) and 50S subunit (P-site or E-site).
2In TIPOST(Fus2), a single tRNA is present in a pe*/E hybrid state, where e* in pe*/E means that the anticodon stem-loop (ASL) of the tRNA lies between the p- and e-sites of the 30S body/platform.
TIPRE(2tRNAs) consists of the ribosome, two tRNAs, mRNA, EF-G, GDP and viomycin. Each TIPRE(Fus), TIPOST(Fus1) and TIPOST(Fus2) consists of the ribosome, a single tRNA, mRNA, EF-G and fusidic acid (Fus). Each TIPRE(GDPCP1) and TIPRE(GDPCP2) consists of the ribosome, a single tRNA, mRNA, EF-G, GDPCP. TIPOST(2tRNAs) consists of the ribosome, two tRNAs, mRNA, EF-G, GDP and Fus.
For 3J5X/3J5W and 3J5N/3J5O (E. coli ribosome), their superpositions on 2WRI/2WRI (Thermus thermophiles ribosome) were carried out using Chimera software's MatchMaker tool [73].