Biological Assembly 1  

 3D View: Structure | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 12.71 kDa 
• Atom Count: 893 
• Modelled Residue Count: 115 
• Deposited Residue Count: 115 
• Unique protein chains: 1

4URD

Cryo-EM map of Trigger Factor bound to a translating ribosome

• DOI: 10.2210/pdb4URD/pdb
• EMDataResource: EMD-2695

• Classification: ISOMERASE
• Organism(s): Escherichia coli
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2014-06-27 Released: 2016-01-13 
• Deposition Author(s): Deeng, J., Chan, K.Y., van der Sluis, E., Bischoff, L., Berninghausen, O., Han, W., Gumbart, J., Schulten, K., Beatrix, B., Beckmann, R.

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 7.70 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Dynamic Behavior of Trigger Factor on the Ribosome.

Deeng, J., Chan, K.Y., Van Der Sluis, E.O., Berninghausen, O., Han, W., Gumbart, J., Schulten, K., Beatrix, B., Beckmann, R.

(2016) J Mol Biol 428: 3588

• PubMed: 27320387 
• DOI: 10.1016/j.jmb.2016.06.007
• Primary Citation of Related Structures:  
  4URD


• PubMed Abstract: 
  

Trigger factor (TF) is the only ribosome-associated chaperone in bacteria. It interacts with hydrophobic segments in nascent chain (NCs) as they emerge from the ribosome. TF binds via its N-terminal ribosome-binding domain (RBD) mainly to ribosomal protein uL23 at the tunnel exit on the large ribosomal subunit. Whereas earlier structural data suggested that TF binds as a rigid molecule to the ribosome, recent comparisons of structural data on substrate-bound, ribosome-bound, and TF in solution from different species suggest that this chaperone is a rather flexible molecule. Here, we present two cryo-electron microscopy structures of TF bound to ribosomes translating an mRNA coding for a known TF substrate from Escherichia coli of a different length. The structures reveal distinct degrees of flexibility for the different TF domains, a conformational rearrangement of the RBD upon ribosome binding, and an increase in rigidity within TF when the NC is extended. Molecular dynamics simulations agree with these data and offer a molecular basis for these observations.

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Organizational Affiliation: 

Gene Center Munich and Center for integrated Protein Science Munich, Department of Biochemistry, Ludwig-Maximilians-Universität München, Feodor-Lynen-Straße 25, Munich 81377, Germany. Electronic address: [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TRIGGER FACTOR	A	115	Escherichia coli	Mutation(s): 0  EC: 5.2.1.8
UniProt
Find proteins for P0A850 (Escherichia coli (strain K12)) Explore P0A850  Go to UniProtKB:  P0A850

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 7.70 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2014-06-27 
• Released Date: 2016-01-13 
Deposition Author(s): Deeng, J., Chan, K.Y., van der Sluis, E., Bischoff, L., Berninghausen, O., Han, W., Gumbart, J., Schulten, K., Beatrix, B., Beckmann, R.

Revision History  

• Version 1.0: 2016-01-13
  Type: Initial release
  
• Version 1.1: 2016-06-22
  Changes: Database references
• Version 1.2: 2016-06-29
  Changes: Database references
• Version 1.3: 2016-10-05
  Changes: Database references
• Version 1.4: 2018-10-03
  Changes: Data collection