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Structure paper

TitleStructures of tmRNA and SmpB as they transit through the ribosome.
Journal, issue, pagesNat Commun, Vol. 12, Issue 1, Page 4909, Year 2021
Publish dateAug 13, 2021
AuthorsCharlotte Guyomar / Gaetano D'Urso / Sophie Chat / Emmanuel Giudice / Reynald Gillet /
PubMed AbstractIn bacteria, trans-translation is the main rescue system, freeing ribosomes stalled on defective messenger RNAs. This mechanism is driven by small protein B (SmpB) and transfer-messenger RNA (tmRNA), ...In bacteria, trans-translation is the main rescue system, freeing ribosomes stalled on defective messenger RNAs. This mechanism is driven by small protein B (SmpB) and transfer-messenger RNA (tmRNA), a hybrid RNA known to have both a tRNA-like and an mRNA-like domain. Here we present four cryo-EM structures of the ribosome during trans-translation at resolutions from 3.0 to 3.4 Å. These include the high-resolution structure of the whole pre-accommodated state, as well as structures of the accommodated state, the translocated state, and a translocation intermediate. Together, they shed light on the movements of the tmRNA-SmpB complex in the ribosome, from its delivery by the elongation factor EF-Tu to its passage through the ribosomal A and P sites after the opening of the B1 bridges. Additionally, we describe the interactions between the tmRNA-SmpB complex and the ribosome. These explain why the process does not interfere with canonical translation.
External linksNat Commun / PubMed:34389707 / PubMed Central
MethodsEM (single particle)
Resolution3.08 - 3.44 Å
Structure data

11710

7abz

EMDB-11710, PDB-7abz:
Structure of pre-accomodated trans-translation complex on E. coli stalled ribosome.
Method: EM (single particle) / Resolution: 3.21 Å

11713

7ac7

EMDB-11713, PDB-7ac7:
Structure of accomodated trans-translation complex on E. Coli stalled ribosome.
Method: EM (single particle) / Resolution: 3.08 Å

11717

7acj

EMDB-11717, PDB-7acj:
Structure of translocated trans-translation complex on E. coli stalled ribosome.
Method: EM (single particle) / Resolution: 3.2 Å

11718

7acr

EMDB-11718, PDB-7acr:
Structure of post-translocated trans-translation complex on E. coli stalled ribosome.
Method: EM (single particle) / Resolution: 3.44 Å

Chemicals

ChemComp-MG:
Unknown entry

ChemComp-KIR:
KIRROMYCIN

ChemComp-GDP:
GUANOSINE-5'-DIPHOSPHATE / GDP, energy-carrying molecule*YM / Guanosine diphosphate

ChemComp-ZN:
Unknown entry

Source
  • Escherichia coli (strain K12) (bacteria)
  • escherichia coli k-12 (bacteria)
  • escherichia coli (E. coli)
  • escherichia coli bl21(de3) (bacteria)
KeywordsTRANSLATION / Trans-translation / tmRNA / SmpB / Ribosome

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