2O0F

Docking of the modified RF3 X-ray structure into cryo-EM map of E.coli 70S ribosome bound with RF3


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 15.5 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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This is version 1.4 of the entry. See complete history


Literature

RF3 induces ribosomal conformational changes responsible for dissociation of class I release factors

Gao, H.Zhou, Z.Rawat, U.Huang, C.Bouakaz, L.Wang, C.Cheng, Z.Liu, Y.Zavialov, A.Gursky, R.Sanyal, S.Ehrenberg, M.Frank, J.Song, H.

(2007) Cell 129: 929-941

  • DOI: https://doi.org/10.1016/j.cell.2007.03.050
  • Primary Citation of Related Structures:  
    2H5E, 2O0F

  • PubMed Abstract: 

    During translation termination, class II release factor RF3 binds to the ribosome to promote rapid dissociation of a class I release factor (RF) in a GTP-dependent manner. We present the crystal structure of E. coli RF3*GDP, which has a three-domain architecture strikingly similar to the structure of EF-Tu*GTP. Biochemical data on RF3 mutants show that a surface region involving domains II and III is important for distinct steps in the action cycle of RF3. Furthermore, we present a cryo-electron microscopy (cryo-EM) structure of the posttermination ribosome bound with RF3 in the GTP form. Our data show that RF3*GTP binding induces large conformational changes in the ribosome, which break the interactions of the class I RF with both the decoding center and the GTPase-associated center of the ribosome, apparently leading to the release of the class I RF.


  • Organizational Affiliation

    Howard Hughes Medical Institute, Health Research, Inc. at the Wadsworth Center, Empire State Plaza, Albany, NY 12201-0509, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Peptide chain release factor 3529Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7I4 (Escherichia coli (strain K12))
Explore P0A7I4 
Go to UniProtKB:  P0A7I4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A7I4
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 15.5 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONSPIDER

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2007-07-24
    Type: Initial release
  • Version 1.1: 2008-05-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2018-07-18
    Changes: Data collection
  • Version 1.4: 2023-12-27
    Changes: Data collection, Database references, Refinement description