Journal
JOURNAL OF BIOCHEMISTRY
Volume 149, Issue 5, Pages 609-618Publisher
OXFORD UNIV PRESS
DOI: 10.1093/jb/mvr010
Keywords
HaloTag; single molecule; ribosome; trans-translation; tmRNA
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Funding
- City Area Program
- Ministry of Education, Culture, Sports, Science and Technology of Japan [17026008, 19058002, 17310123, 22570156, 19770143]
- Grants-in-Aid for Scientific Research [22570156, 22310134, 23657071, 23247013, 19770143, 19058002, 17310123, 17026008] Funding Source: KAKEN
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Trans-translation is an eubacterial quality control system to rescue the stalled ribosome, in which multiple components such as transfer messenger RNA (tmRNA) and Small protein B (SmpB) are involved. However, how these molecules interact with ribosome remains elusive. Here, we report the single molecule analysis of the trans-translation process. We developed a new method to label the functional ribosome, in which a tag protein (the HaloTag protein of 297 amino acids) was fused to the 30S ribosomal protein S2 and covalently labelled with specific ligand (HaloTag ligand), resulting in the stable and specific labelling of ribosome. Ribosomes were anchored onto the glass surface using biotinylated derivative of the Cy3 HaloTag ligand (i.e. biotin-Cy3-ligand), and real-time interactions of Cy5-tmRNA/SmpB/EF-Tu ternary complexes with anchored ribosomes are observed as a model of the trans-translation entry. Statistical analysis revealed that Cy5-tmRNA/SmpB/EF-Tu ternary complexes bind to the anchored ribosome with the second-order rate constant of 2.6 x 10(6) (1/M/s) and tmRNAs undergo multi-modal pathway before release from ribosome. The methods presented here are also applicable to the analysis for general translation processes.
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