Rationalization and prediction of selective decoding of pseudouridine-modified nonsense and sense codons

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FIGURE 5.
FIGURE 5.

Proposed roles of Ψ in decoding. (A) In the high resolution structure of 1F7U, a water molecule bridges the N1 atom of Ψ and two backbone phosphate groups. (B) Overlay of Ψ27/A43 (1F7U) with U/A, first pair in the A-site of 2HGP. (C) Modeled Ψ/A pair from the mini-helix formed between ΨGA and tRNATyr(GUA) superimposed on Ψ27/A43 (1F7U). (D) Chemical structure of i6A37 on the left and a molecular view made from 3I8G showing the position of i6 group on the right. (E) Space-filled illustrations of the A-site tRNA-mRNA mini-helix show that the accommodation of the hydrophobic i6 modification is less favorable for Ψ in the first codon position compared to uridine. Color coding is the same as that used in Figure 1, except that carbon atoms in A37 are colored in magenta.

This Article

  1. Published in Advance January 26, 2012, doi: 10.1261/rna.031351.111 RNA 18: 355-367

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