3IZQ

Structure of the Dom34-Hbs1-GDPNP complex bound to a translating ribosome


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 9.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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This is version 1.3 of the entry. See complete history


Literature

Structure of the no-go mRNA decay complex Dom34-Hbs1 bound to a stalled 80S ribosome.

Becker, T.Armache, J.P.Jarasch, A.Anger, A.M.Villa, E.Sieber, H.Motaal, B.A.Mielke, T.Berninghausen, O.Beckmann, R.

(2011) Nat Struct Mol Biol 18: 715-720

  • DOI: https://doi.org/10.1038/nsmb.2057
  • Primary Citation of Related Structures:  
    3IZQ

  • PubMed Abstract: 

    No-go decay (NGD) is a mRNA quality-control mechanism in eukaryotic cells that leads to degradation of mRNAs stalled during translational elongation. The key factors triggering NGD are Dom34 and Hbs1. We used cryo-EM to visualize NGD intermediates resulting from binding of the Dom34-Hbs1 complex to stalled ribosomes. At subnanometer resolution, all domains of Dom34 and Hbs1 were identified, allowing the docking of crystal structures and homology models. Moreover, the close structural similarity of Dom34 and Hbs1 to eukaryotic release factors (eRFs) enabled us to propose a model for the ribosome-bound eRF1-eRF3 complex. Collectively, our data provide structural insights into how stalled mRNA is recognized on the ribosome and how the eRF complex can simultaneously recognize stop codons and catalyze peptide release.


  • Organizational Affiliation

    Gene Center and Center for Integrated Protein Science Munich, Department of Biochemistry, Ludwig-Maximilians-Universität München, Munich, Germany. becker@lmb.uni-muenchen.de


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Protein DOM34A [auth 0]386Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: DOM34N2016YNL001W
EC: 3.1
UniProt
Find proteins for P33309 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P33309 
Go to UniProtKB:  P33309
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP33309
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Elongation factor 1 alpha-like proteinB [auth 1]611Saccharomyces cerevisiaeMutation(s): 1 
Gene Names: HBS1YKR084CYKR404
EC: 3.6.5
UniProt
Find proteins for P32769 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P32769 
Go to UniProtKB:  P32769
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP32769
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 9.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONSPIDER

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-06-01
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2018-07-18
    Changes: Data collection
  • Version 1.3: 2024-02-21
    Changes: Data collection, Database references