4A8B

Symmetrized cryo-EM reconstruction of E. coli DegQ 12-mer in complex with lysozymes


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 13.0 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Newly Folded Substrates Inside the Molecular Cage of the Htra Chaperone Degq

Malet, H.Canellas, F.Sawa, J.Yan, J.Thalassinos, K.Ehrmann, M.Clausen, T.Saibil, H.R.

(2012) Nat Struct Mol Biol 19: 152

  • DOI: https://doi.org/10.1038/nsmb.2210
  • Primary Citation of Related Structures:  
    4A8A, 4A8B, 4A8C, 4A8D, 4A9G

  • PubMed Abstract: 

    The HtrA protein family combines chaperone and protease activities and is essential for protein quality control in many organisms. Whereas the mechanisms underlying the proteolytic function of HtrA proteins are well characterized, their chaperone activity remains poorly understood. Here we describe cryo-EM structures of Escherichia coli DegQ in its 12- and 24-mer states in complex with model substrates, providing a structural model of HtrA chaperone action. Up to six lysozyme substrates bind inside the DegQ 12-mer cage and are visualized in a close-to-native state. An asymmetric reconstruction reveals the binding of a well-ordered lysozyme to four DegQ protomers. DegQ PDZ domains are located adjacent to substrate density and their presence is required for chaperone activity. The substrate-interacting regions appear conserved in 12- and 24-mer cages, suggesting a common mechanism of chaperone function.


  • Organizational Affiliation

    Institute of Structural and Molecular Biology, Crystallography, Birkbeck College, London, UK.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
PERIPLASMIC PH-DEPENDENT SERINE ENDOPROTEASE DEGQ
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L
436Escherichia coli K-12Mutation(s): 1 
EC: 3.4.21.107
UniProt
Find proteins for P39099 (Escherichia coli (strain K12))
Explore P39099 
Go to UniProtKB:  P39099
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP39099
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
LYSOZYME C
M, N, O, P, Q
M, N, O, P, Q, R
129Gallus gallusMutation(s): 0 
EC: 3.2.1.17
UniProt
Find proteins for P00698 (Gallus gallus)
Explore P00698 
Go to UniProtKB:  P00698
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP00698
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 13.0 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONIMAGIC5
RECONSTRUCTIONSPIDER

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2012-01-11
    Type: Initial release
  • Version 1.1: 2012-02-15
    Changes: Other
  • Version 1.2: 2017-08-23
    Changes: Data collection, Refinement description
  • Version 1.3: 2024-05-08
    Changes: Data collection, Database references, Refinement description