3IYX

Coordinates of the b1b bridge-forming protein structures fitted into the Cryo-EM map of E.coli 70S ribosome (EMD-1056)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 9 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

Intrinsic molecular properties of the protein-protein bridge facilitate ratchet-like motion of the ribosome

Shasmal, M.Chakraborty, B.Sengupta, J.

(2010) Biochem.Biophys.Res.Commun. 399: 192-197

  • DOI: 10.1016/j.bbrc.2010.07.053
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The ribosomal intersubunit bridges maintain the overall architecture of the ribosome and thereby play a pivotal role in the dynamics of translation. The only protein-protein bridge, b1b, is formed by the two proteins, S13 and L5 of the small and larg ...

    The ribosomal intersubunit bridges maintain the overall architecture of the ribosome and thereby play a pivotal role in the dynamics of translation. The only protein-protein bridge, b1b, is formed by the two proteins, S13 and L5 of the small and large ribosomal subunits, respectively. B1b absorbs the largest movement during ratchet-like motion, and its two proteins reorganize in different constellations during this motion of the ribosome. Our results in this study of b1b in the Escherichia coli 70S ribosome suggest that the intrinsic molecular features of the bridging proteins allow the bridge to modulate the ratchet-like motion in a controlled manner. Additionally, another large subunit protein, L31, seems to participate with S13 and L5 in the formation, dynamics, and stabilization of this bridge.


    Organizational Affiliation

    Structural Biology and Bioinformatics Division, Indian Institute of Chemical Biology, 4 Raja S.C. Mullick Road, Calcutta 700032, India.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S13
M
118Escherichia coli O55:H7 (strain CB9615 / EPEC)Mutation(s): 0 
Gene Names: rpsM
Find proteins for D3QTD7 (Escherichia coli O55:H7 (strain CB9615 / EPEC))
Go to UniProtKB:  D3QTD7
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L5
F
179Escherichia coli O55:H7 (strain CB9615 / EPEC)Mutation(s): 0 
Gene Names: rplE
Find proteins for D3QTE7 (Escherichia coli O55:H7 (strain CB9615 / EPEC))
Go to UniProtKB:  D3QTE7
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L31
A
70Escherichia coli O55:H7 (strain CB9615 / EPEC)Mutation(s): 0 
Gene Names: rpmE
Find proteins for D3QYD6 (Escherichia coli O55:H7 (strain CB9615 / EPEC))
Go to UniProtKB:  D3QYD6
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 9 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: 2010-09-01
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2018-07-18
    Type: Data collection