2BCW

Coordinates of the N-terminal domain of ribosomal protein L11,C-terminal domain of ribosomal protein L7/L12 and a portion of the G' domain of elongation factor G, as fitted into cryo-em map of an Escherichia coli 70S*EF-G*GDP*fusidic acid complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 11.2 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Interaction of the G' Domain of Elongation Factor G and the C-Terminal Domain of Ribosomal Protein L7/L12 during Translocation as Revealed by Cryo-EM.

Datta, P.P.Sharma, M.R.Qi, L.Frank, J.Agrawal, R.K.

(2005) Mol.Cell 20: 723-731

  • DOI: 10.1016/j.molcel.2005.10.028

  • PubMed Abstract: 
  • During tRNA translocation on the ribosome, an arc-like connection (ALC) is formed between the G' domain of elongation factor G (EF-G) and the L7/L12-stalk base of the large ribosomal subunit in the GDP state. To delineate the boundary of EF-G within ...

    During tRNA translocation on the ribosome, an arc-like connection (ALC) is formed between the G' domain of elongation factor G (EF-G) and the L7/L12-stalk base of the large ribosomal subunit in the GDP state. To delineate the boundary of EF-G within the ALC, we tagged an amino acid residue near the tip of the G' domain of EF-G with undecagold, which was then visualized with three-dimensional cryo-electron microscopy (cryo-EM). Two distinct positions for the undecagold, observed in the GTP-state and GDP-state cryo-EM maps of the ribosome bound EF-G, allowed us to determine the movement of the labeled amino acid. Molecular analyses of the cryo-EM maps show: (1) that three structural components, the N-terminal domain of ribosomal protein L11, the C-terminal domain of ribosomal protein L7/L12, and the G' domain of EF-G, participate in formation of the ALC; and (2) that both EF-G and the ribosomal protein L7/L12 undergo large conformational changes to form the ALC.


    Related Citations: 
    • Three-dimensional structure of the ribosomal translocase: elongation factor G from Thermus thermophilus
      Aevarsson, A.,Brazhnikov, E.,Garber, M.,Zheltonosova, J.,Chirgadze, Y.,al-Karadaghi, S.,Svensson, L.A.,Liljas, A.
      (1994) Embo J. 13: 3669
    • A detailed view of a ribosomal active site: the structure of the L11-RNA complex
      Wimberly, B.T.,Guymon, R.,McCutcheon, J.P.,White, S.W.,Ramakrishnan, V.
      (1999) Cell 97: 491
    • Structure of the C-terminal domain of the ribosomal protein L7/L12 from Escherichia coli at 1.7
      Leijonmarck, M.,Liljas, A.
      (1987) J.Mol.Biol. 195: 555


    Organizational Affiliation

    Division of Molecular Medicine, Wadsworth Center, New York State Department of Health, Empire State Plaza, P.O. Box 509, Albany, New York 12201, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L11
A
65Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)Mutation(s): 0 
Gene Names: rplK
Find proteins for P29395 (Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099))
Go to UniProtKB:  P29395
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L7/L12
B
68Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: rplL
Find proteins for P0A7K2 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A7K2
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Elongation factor G
C
58Thermus thermophilusMutation(s): 0 
Gene Names: fusA (fus)
Find proteins for P13551 (Thermus thermophilus)
Go to UniProtKB:  P13551
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 11.2 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: 2005-12-20
    Type: Initial release
  • Version 1.1: 2008-05-01
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2018-07-18
    Type: Data collection