Abstract
A coarse-grained model is utilized to examine the changes in flexibility of aminoacyl-transfer RNA when it binds to elongation factor-Tu and guanosine-5′-triphosphate GTP. We predict that under appropriate conditions mode-coupling speeds-up the barrier-crossing rate for cognate (three base pairs that are matched) relative to near-cognate (one base pair mismatch) ternary complexes. We estimate the torque acting on the cognate ternary complex due to induced wrapping of the 30S subunit around the decoding site after correct codon-anticodon recognition.
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