In the case of yeast tRNA (phenyl alanine) there is a G-U base pair (G4-U69), and many bases are methylatedlated like G26(2'methylated), C49(5'methylated), C40(5'methylated), and so on. If we look at the tertiary structure (L-shape of tRNA), we come across many unusual bases (I mean a deviation from normal WC bases) but still there is a maximization of Watson-Crick base-pair and stacking interaction so tRNA is stable and functional. What are the consequences of these methylated bases and what may be the impact of the unusual bases?
Hi, tRNA modifications may have multiple functions - some may contribute to translation accuracy, some may have an effect on tRNA proper folding, some may enhance aminoacylation efficiency.
In case of tRNA(Phe) modifications, you may want to see this paper:
http://www.ncbi.nlm.nih.gov/pubmed/12409466
and tRNA modifications were recently reviewed for example here:
http://www.ncbi.nlm.nih.gov/pubmed/23139145
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