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. 2022 Jul 27;50(18):10201–10211. doi: 10.1093/nar/gkac576

Figure 4.

Figure 4.

Structural studies of tRNAUTu1 on the ribosome. (A) Structure of the ribosome, highlighting tRNAs in the A, P and E sites. (B) Overlay of A/A (purple, PDB:7UR5) and P/P (orange, PDB:7UR5) state tRNAUTu1 highlights the shift in the variable arm position. (C) Zoom in on the variable arm shows P/P tRNAUTu1 (orange) to rotate 17° upwards from A/A tRNAUTu1 (purple). (D) Overlay of A/A (purple) and P/P (orange) state tRNAUTu1 with A/A state tRNASec (blue, PDB:5LZE) in the context of the ribosome P site. A clash is observed with the A/A state tRNAUTu1 and the A-site finger of the ribosome. A zoom in on the variable arm with respect to the A-site finger shows the shift from the A/A to the P/P state for tRNAUTu1 and compares it with the A/A state of tRNASec (blue). (E) Cloverleaf structure of tRNAUTu1 highlights the position of the residues of interest, C8 and A45. A zoom in on the structure of those residues shows the formation of a hydrogen bond. (F) Cloverleaf structure of tRNASec highlights the corresponding residues of interest from tRNAUTu1. A zoom in on the structure of those residues (PDB:5LZE) shows that there is no base pair present. Instead, the corresponding residues point outwards, away from the tRNA core.