Hon-yaku: a biology-driven Bayesian methodology for identifying translation initiation sites in prokaryotes
The 70S ribosomes can select the proper initiator tRNA between Met-tRNAfMet and fMet-tRNAfMet. Experiments on binding and on formation of aminoacylpuromycin, as a function of magnesium, potassium, or initiation factors, suggest a two-state equilibrium for 70S particles, involving a minor, active conformation and a major one which is not readily active. The formyl group would act as a specific trigger to select the active conformation. Experimental results are interpreted following this simple model and equilibrium parameters, together with kinetic constants of the peptidyltransferase activity, are presented.