Biological Assembly 1  

 3D View: Structure

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 13-mer - A12B1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 600.76 kDa 
• Atom Count: 37730 
• Residue Count: 5098 
• Unique protein chains: 2

2ZLE

Cryo-EM structure of DegP12/OMP

• DOI: 10.2210/pdb2ZLE/pdb
• EMDataResource: EMD-1505

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


• Deposited: 2008-04-09 Released: 2008-06-03 
• Deposition Author(s): Schaefer, E., Saibil, H.R.

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 28.0 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural basis for the regulated protease and chaperone function of DegP

Krojer, T., Sawa, J., Saibil, H.R., Ehrmann, M., Clausen, T.

(2008) Nature 453: 885-890

• PubMed: 18496527 
• DOI: 10.1038/nature07004
• Primary Citation of Related Structures:  
  2ZLE, 3CS0


• PubMed Abstract: 
  

All organisms have to monitor the folding state of cellular proteins precisely. The heat-shock protein DegP is a protein quality control factor in the bacterial envelope that is involved in eliminating misfolded proteins and in the biogenesis of outer-membrane proteins. Here we describe the molecular mechanisms underlying the regulated protease and chaperone function of DegP from Escherichia coli. We show that binding of misfolded proteins transforms hexameric DegP into large, catalytically active 12-meric and 24-meric multimers. A structural analysis of these particles revealed that DegP represents a protein packaging device whose central compartment is adaptable to the size and concentration of substrate. Moreover, the inner cavity serves antagonistic functions. Whereas the encapsulation of folded protomers of outer-membrane proteins is protective and might allow safe transit through the periplasm, misfolded proteins are eliminated in the molecular reaction chamber. Oligomer reassembly and concomitant activation on substrate binding may also be critical in regulating other HtrA proteases implicated in protein-folding diseases.

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Organizational Affiliation: 

Research Institute for Molecular Pathology - IMP, Dr Bohrgasse 7, A-1030 Vienna, Austria.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protease do	A, B, C, E, F, G, H, I, J, K, L, M	448	Escherichia coli	Mutation(s): 0  Gene Names: degP, htrA, ptd EC: 3.4.21 (PDB Primary Data), 3.4.21.107 (UniProt)
Find proteins for P0C0V0 (Escherichia coli (strain K12)) Explore P0C0V0  Go to UniProtKB:  P0C0V0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Outer membrane protein C	D	346	Escherichia coli	Mutation(s): 0  Gene Names: ompC, meoA, par
Find proteins for P06996 (Escherichia coli (strain K12)) Explore P06996  Go to UniProtKB:  P06996

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 28.0 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2008-04-09 
• Released Date: 2008-06-03 
Deposition Author(s): Schaefer, E., Saibil, H.R.

Revision History 

• Version 1.0: 2008-06-03
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-02-08
  Changes: Other