Literature DB >> 27818103

Key Intermediates in Ribosome Recycling Visualized by Time-Resolved Cryoelectron Microscopy.

Ziao Fu1, Sandip Kaledhonkar2, Anneli Borg3, Ming Sun4, Bo Chen4, Robert A Grassucci5, Måns Ehrenberg3, Joachim Frank6.   

Abstract

Upon encountering a stop codon on mRNA, polypeptide synthesis on the ribosome is terminated by release factors, and the ribosome complex, still bound with mRNA and P-site-bound tRNA (post-termination complex, PostTC), is split into ribosomal subunits, ready for a new round of translational initiation. Separation of post-termination ribosomes into subunits, or "ribosome recycling," is promoted by the joint action of ribosome-recycling factor (RRF) and elongation factor G (EF-G) in a guanosine triphosphate (GTP) hydrolysis-dependent manner. Here we used a mixing-spraying-based method of time-resolved cryo-electron microscopy (cryo-EM) to visualize the short-lived intermediates of the recycling process. The two complexes that contain (1) both RRF and EF-G bound to the PostTC or (2) deacylated tRNA bound to the 30S subunit are of particular interest. Our observations of the native form of these complexes demonstrate the strong potential of time-resolved cryo-EM for visualizing previously unobservable transient structures. Copyright Â
© 2016 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  cryo-EM; mixing-spraying; recycling; ribosome; time-resolved

Mesh:

Substances:

Year:  2016        PMID: 27818103      PMCID: PMC5143168          DOI: 10.1016/j.str.2016.09.014

Source DB:  PubMed          Journal:  Structure        ISSN: 0969-2126            Impact factor:   5.006


  44 in total

1.  Crystal structure combined with genetic analysis of the Thermus thermophilus ribosome recycling factor shows that a flexible hinge may act as a functional switch.

Authors:  T Toyoda; O F Tin; K Ito; T Fujiwara; T Kumasaka; M Yamamoto; M B Garber; Y Nakamura
Journal:  RNA       Date:  2000-10       Impact factor: 4.942

Review 2.  Ribosome structure and the mechanism of translation.

Authors:  V Ramakrishnan
Journal:  Cell       Date:  2002-02-22       Impact factor: 41.582

3.  Splitting of the posttermination ribosome into subunits by the concerted action of RRF and EF-G.

Authors:  Andrey V Zavialov; Vasili V Hauryliuk; Måns Ehrenberg
Journal:  Mol Cell       Date:  2005-06-10       Impact factor: 17.970

4.  Progression of the ribosome recycling factor through the ribosome dissociates the two ribosomal subunits.

Authors:  Chandana Barat; Partha P Datta; V Samuel Raj; Manjuli R Sharma; Hideko Kaji; Akira Kaji; Rajendra K Agrawal
Journal:  Mol Cell       Date:  2007-07-20       Impact factor: 17.970

5.  Initial bridges between two ribosomal subunits are formed within 9.4 milliseconds, as studied by time-resolved cryo-EM.

Authors:  Tanvir R Shaikh; Aymen S Yassin; Zonghuan Lu; David Barnard; Xing Meng; Toh-Ming Lu; Terence Wagenknecht; Rajendra K Agrawal
Journal:  Proc Natl Acad Sci U S A       Date:  2014-06-23       Impact factor: 11.205

6.  Specific interaction between EF-G and RRF and its implication for GTP-dependent ribosome splitting into subunits.

Authors:  Ning Gao; Andrey V Zavialov; Måns Ehrenberg; Joachim Frank
Journal:  J Mol Biol       Date:  2007-10-16       Impact factor: 5.469

7.  Structural basis for aminoglycoside inhibition of bacterial ribosome recycling.

Authors:  Maria A Borovinskaya; Raj D Pai; Wen Zhang; Barbara S Schuwirth; James M Holton; Go Hirokawa; Hideko Kaji; Akira Kaji; Jamie H Doudna Cate
Journal:  Nat Struct Mol Biol       Date:  2007-07-29       Impact factor: 15.369

8.  Elongation factor G participates in ribosome disassembly by interacting with ribosome recycling factor at their tRNA-mimicry domains.

Authors:  Koichi Ito; Toshinobu Fujiwara; Tomohiko Toyoda; Yoshikazu Nakamura
Journal:  Mol Cell       Date:  2002-06       Impact factor: 17.970

9.  The Cryo-EM structure of a complete 30S translation initiation complex from Escherichia coli.

Authors:  Patricia Julián; Pohl Milon; Xabier Agirrezabala; Gorka Lasso; David Gil; Marina V Rodnina; Mikel Valle
Journal:  PLoS Biol       Date:  2011-07-05       Impact factor: 8.029

10.  RELION: implementation of a Bayesian approach to cryo-EM structure determination.

Authors:  Sjors H W Scheres
Journal:  J Struct Biol       Date:  2012-09-19       Impact factor: 2.867

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  22 in total

Review 1.  Relating Structure and Dynamics in RNA Biology.

Authors:  Kevin P Larsen; Junhong Choi; Arjun Prabhakar; Elisabetta Viani Puglisi; Joseph D Puglisi
Journal:  Cold Spring Harb Perspect Biol       Date:  2019-07-01       Impact factor: 10.005

2.  Research in morphology and flow cytometry is at the heart of hematology.

Authors:  Marie C Béné; Gina Zini
Journal:  Haematologica       Date:  2017-03       Impact factor: 9.941

3.  Post-termination Ribosome Intermediate Acts as the Gateway to Ribosome Recycling.

Authors:  Arjun Prabhakar; Mark C Capece; Alexey Petrov; Junhong Choi; Joseph D Puglisi
Journal:  Cell Rep       Date:  2017-07-05       Impact factor: 9.423

4.  The kinetic mechanism of bacterial ribosome recycling.

Authors:  Yuanwei Chen; Akira Kaji; Hideko Kaji; Barry S Cooperman
Journal:  Nucleic Acids Res       Date:  2017-09-29       Impact factor: 16.971

Review 5.  Single-Molecule Fluorescence Applied to Translation.

Authors:  Arjun Prabhakar; Elisabetta Viani Puglisi; Joseph D Puglisi
Journal:  Cold Spring Harb Perspect Biol       Date:  2019-01-02       Impact factor: 10.005

6.  A Fast and Effective Microfluidic Spraying-Plunging Method for High-Resolution Single-Particle Cryo-EM.

Authors:  Xiangsong Feng; Ziao Fu; Sandip Kaledhonkar; Yuan Jia; Binita Shah; Amy Jin; Zheng Liu; Ming Sun; Bo Chen; Robert A Grassucci; Yukun Ren; Hongyuan Jiang; Joachim Frank; Qiao Lin
Journal:  Structure       Date:  2017-03-09       Impact factor: 5.006

7.  Structural basis for ribosome recycling by RRF and tRNA.

Authors:  Dejian Zhou; Takehito Tanzawa; Jinzhong Lin; Matthieu G Gagnon
Journal:  Nat Struct Mol Biol       Date:  2019-12-23       Impact factor: 18.361

Review 8.  Time-resolved cryo-electron microscopy: Recent progress.

Authors:  Joachim Frank
Journal:  J Struct Biol       Date:  2017-06-16       Impact factor: 2.867

9.  Distinct mechanisms of the human mitoribosome recycling and antibiotic resistance.

Authors:  Ravi Kiran Koripella; Ayush Deep; Ekansh K Agrawal; Pooja Keshavan; Nilesh K Banavali; Rajendra K Agrawal
Journal:  Nat Commun       Date:  2021-06-14       Impact factor: 14.919

Review 10.  Tools for the cryo-EM gold rush: going from the cryo-EM map to the atomistic model.

Authors:  Doo Nam Kim; Karissa Y Sanbonmatsu
Journal:  Biosci Rep       Date:  2017-12-05       Impact factor: 3.840

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