3J0D

Models for the T. thermophilus ribosome recycling factor bound to the E. coli post-termination complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 11.1 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural insights into initial and intermediate steps of the ribosome-recycling process.

Yokoyama, T.Shaikh, T.R.Iwakura, N.Kaji, H.Kaji, A.Agrawal, R.K.

(2012) Embo J. 31: 1836-1846

  • DOI: 10.1038/emboj.2012.22
  • Primary Citation of Related Structures:  3J0E

  • PubMed Abstract: 
  • The ribosome-recycling factor (RRF) and elongation factor-G (EF-G) disassemble the 70S post-termination complex (PoTC) into mRNA, tRNA, and two ribosomal subunits. We have determined cryo-electron microscopic structures of the PoTC·RRF complex, with ...

    The ribosome-recycling factor (RRF) and elongation factor-G (EF-G) disassemble the 70S post-termination complex (PoTC) into mRNA, tRNA, and two ribosomal subunits. We have determined cryo-electron microscopic structures of the PoTC·RRF complex, with and without EF-G. We find that domain II of RRF initially interacts with universally conserved residues of the 23S rRNA helices 43 and 95, and protein L11 within the 50S ribosomal subunit. Upon EF-G binding, both RRF and tRNA are driven towards the tRNA-exit (E) site, with a large rotational movement of domain II of RRF towards the 30S ribosomal subunit. During this intermediate step of the recycling process, domain II of RRF and domain IV of EF-G adopt hitherto unknown conformations. Furthermore, binding of EF-G to the PoTC·RRF complex reverts the ribosome from ratcheted to unratcheted state. These results suggest that (i) the ribosomal intersubunit reorganizations upon RRF binding and subsequent EF-G binding could be instrumental in destabilizing the PoTC and (ii) the modes of action of EF-G during tRNA translocation and ribosome-recycling steps are markedly different.


    Organizational Affiliation

    Division of Translational Medicine, Wadsworth Center, New York State Department of Health, Albany, NY, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L11
G
141Escherichia coli (strain K12)Gene Names: rplK (relC)
Find proteins for P0A7J7 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A7J7
Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S12
I
123Escherichia coli (strain K12)Gene Names: rpsL (strA)
Find proteins for P0A7S3 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A7S3
Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
Ribosome-recycling factor
J
185Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)Gene Names: frr
Find proteins for Q9WX76 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
Go to UniProtKB:  Q9WX76
Entity ID: 1
MoleculeChainsLengthOrganism
ribosomal 23S RNAA50Escherichia coli
Entity ID: 2
MoleculeChainsLengthOrganism
ribosomal 23S RNAB22Escherichia coli
Entity ID: 3
MoleculeChainsLengthOrganism
ribosomal 23S RNAC17Escherichia coli
Entity ID: 4
MoleculeChainsLengthOrganism
ribosomal 23S RNAD13Escherichia coli
Entity ID: 5
MoleculeChainsLengthOrganism
ribosomal 23S RNAE19Escherichia coli
Entity ID: 6
MoleculeChainsLengthOrganism
ribosomal 23S RNAF19Escherichia coli
Entity ID: 8
MoleculeChainsLengthOrganism
ribosomal 16S RNAH18Escherichia coli
Entity ID: 9
MoleculeChainsLengthOrganism
ribosomal 16S RNAh19Escherichia coli
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 11.1 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-04-25
    Type: Initial release
  • Version 1.1: 2013-11-13
    Type: Database references
  • Version 1.2: 2014-07-23
    Type: Other