tRNA conformation and tRNA-protein interactions. A, stereo
overlay of the unfolded anticodon loop in the present complex (gold)
with a canonical anticodon-loop structure in red exemplified by yeast
tRNA(Phe) (from 1EHZ; Ref.
18). For clarity, the bases in
yeast tRNA(Phe) are shown unmodified. B, summary of RNA-protein
interactions. Protein and nucleic acid are colored as in
Fig. 1. Green arrows
for side chain-RNA interactions, blue for backbone-RNA interactions,
and red for intra-RNA interactions (excluding standard pairing). S80
is excluded for clarity. Gray insert, consensus sequence of the eight
tRNAs in E. coli that are modified by MiaA. Nucleotide numbering is
in red. N is any nucleotide. C, close-up in stereo of the
tight interaction between G34 and the “bottom” loop.