6OPE

Crystal structure of tRNA^ Ala(GGC) U32-A38 bound to near-cognate 70S A site

This is a non-PDB format compatible entry.

Summary for 6OPE

• Entry DOI: 10.2210/pdb6ope/pdb
• Descriptor: 16S rRNA, 30S ribosomal protein S10, 30S ribosomal protein S11, ... (59 entities in total)
• Functional Keywords: protein biosynthesis, ribosomes, rna, mrna, trna, transfer rna, 30s, 50s, 70s, 16s, 23s, ribosomal subunit, bacterial proteins, translation, bacterial translation, codon, decoding, frameshift, ribosome
• Biological source: Thermus thermophilus HB8; More
• Total number of polymer chains: 110
• Total formula weight: 4471066.41

Authors

Nguyen, H.A.,Sunita, S.,Dunham, C.M. (deposition date: 2019-04-24, release date: 2020-06-24, Last modification date: 2023-10-11)

Primary citation

Nguyen, H.A.,Sunita, S.,Dunham, C.M.
Disruption of evolutionarily correlated tRNA elements impairs accurate decoding.
Proc.Natl.Acad.Sci.USA, 117:16333-16338, 2020

PubMed Abstract: Bacterial transfer RNAs (tRNAs) contain evolutionarily conserved sequences and modifications that ensure uniform binding to the ribosome and optimal translational accuracy despite differences in their aminoacyl attachments and anticodon nucleotide sequences. In the tRNA anticodon stem-loop, the anticodon sequence is correlated with a base pair in the anticodon loop (nucleotides 32 and 38) to tune the binding of each tRNA to the decoding center in the ribosome. Disruption of this correlation renders the ribosome unable to distinguish correct from incorrect tRNAs. The molecular basis for how these two tRNA features combine to ensure accurate decoding is unclear. Here, we solved structures of the bacterial ribosome containing either wild-type [Formula: see text] or [Formula: see text] containing a reversed 32-38 pair on cognate and near-cognate codons. Structures of wild-type [Formula: see text] bound to the ribosome reveal 23S ribosomal RNA (rRNA) nucleotide A1913 positional changes that are dependent on whether the codon-anticodon interaction is cognate or near cognate. Further, the 32-38 pair is destabilized in the context of a near-cognate codon-anticodon pair. Reversal of the pairing in [Formula: see text] ablates A1913 movement regardless of whether the interaction is cognate or near cognate. These results demonstrate that disrupting 32-38 and anticodon sequences alters interactions with the ribosome that directly contribute to misreading.

PubMed: 32601241
DOI: 10.1073/pnas.2004170117

Experimental method

X-RAY DIFFRACTION (3.1 Å)