SNAP output for PDB entry 1ibl [SNAP web server]

PDB-id

1ibl; SNAP-derived features in text and JSON formats; DNAproDB

Class

ribosome

Method

X-ray (3.11 Å)

Summary

Structure of the thermus thermophilus 30s ribosomal subunit in complex with a messenger RNA fragment and cognate transfer RNA anticodon stem-loop bound at the a site and with the antibiotic paromomycin

Reference

Ogle JM, Brodersen DE, Clemons Jr WM, Tarry MJ, Carter AP, Ramakrishnan V (2001): "Recognition of cognate transfer RNA by the 30S ribosomal subunit." Science, 292, 897-902. doi: 10.1126/science.1060612.

Abstract

Crystal structures of the 30S ribosomal subunit in complex with messenger RNA and cognate transfer RNA in the A site, both in the presence and absence of the antibiotic paromomycin, have been solved at between 3.1 and 3.3 angstroms resolution. Cognate transfer RNA (tRNA) binding induces global domain movements of the 30S subunit and changes in the conformation of the universally conserved and essential bases A1492, A1493, and G530 of 16S RNA. These bases interact intimately with the minor groove of the first two base pairs between the codon and anticodon, thus sensing Watson-Crick base-pairing geometry and discriminating against near-cognate tRNA. The third, or "wobble," position of the codon is free to accommodate certain noncanonical base pairs. By partially inducing these structural changes, paromomycin facilitates binding of near-cognate tRNAs.