Biological Assembly 1  

 3D View: Structure | Electron Density

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - AB 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 42478.73 
• Atom Count: 2367 
• Residue Count: 389 
• Unique protein chains: 2

4AZ8

Crystal structure of the complex of the Caf1M:Caf1 chaperone:subunit preassembly complex carrying the KDKDTN insertion at the F1G1 loop region

• DOI: 10.2210/pdb4AZ8/pdb

• Classification: CHAPERONE/IMMUNE SYSTEM
• Organism(s): Yersinia pestis
• Expression System: Escherichia coli BL21(DE3)


• Deposited: 2012-06-24 Released: 2012-09-26 
• Deposition Author(s): Yu, X.D., Dubnovitsky, A., Pudney, A.F., MacIntyre, S., Knight, S.D., Zavialov, A.V.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free: 0.251 
• R-Value Work: 0.221 

Literature

Allosteric Mechanism Controls Traffic in the Chaperone/Usher Pathway.

Di Yu, X., Dubnovitsky, A., Pudney, A.F., Macintyre, S., Knight, S.D., Zavialov, A.V.

(2012) Structure 20: 1861

• PubMed: 22981947 
• DOI: 10.1016/j.str.2012.08.016
• Primary Citation of Related Structures:  
  4AYF, 4B0M, 4B0E, 4AY0


• PubMed Abstract: 
  

Many virulence organelles of Gram-negative bacterial pathogens are assembled via the chaperone/usher pathway. The chaperone transports organelle subunits across the periplasm to the outer membrane usher, where they are released and incorporated into growing fibers. Here, we elucidate the mechanism of the usher-targeting step in assembly of the Yersinia pestis F1 capsule at the atomic level. The usher interacts almost exclusively with the chaperone in the chaperone:subunit complex. In free chaperone, a pair of conserved proline residues at the beginning of the subunit-binding loop form a "proline lock" that occludes the usher-binding surface and blocks usher binding. Binding of the subunit to the chaperone rotates the proline lock away from the usher-binding surface, allowing the chaperone-subunit complex to bind to the usher. We show that the proline lock exists in other chaperone/usher systems and represents a general allosteric mechanism for selective targeting of chaperone:subunit complexes to the usher and for release and recycling of the free chaperone.

---

Organizational Affiliation: 

Department of Molecular Biology, Uppsala BioCenter, Swedish University of Agricultural Sciences, BMC, Box 590, SE-75324 Uppsala, Sweden.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
CHAPERONE PROTEIN CAF1M	A	240	Yersinia pestis	Mutation(s): 0  Gene Names: caf1M
Find proteins for P26926 (Yersinia pestis) Go to UniProtKB:  P26926

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
F1 CAPSULE ANTIGEN	B	149	Yersinia pestis	Mutation(s): 0  Gene Names: caf1
Find proteins for P26948 (Yersinia pestis) Go to UniProtKB:  P26948

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free: 0.251 
• R-Value Work: 0.221 
• Space Group: P 1 2₁ 1

Unit Cell:

Length (Å)	Angle (°)
a = 35.510	α = 90.00
b = 69.308	β = 94.82
c = 66.035	γ = 90.00

Software Package:

Software Name	Purpose
PHENIX	refinement
SCALEPACK	data scaling
MOSFLM	data reduction
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-06-24 
• Released Date: 2012-09-26 
• Deposition Author(s): Yu, X.D., Dubnovitsky, A., Pudney, A.F., MacIntyre, S., Knight, S.D., Zavialov, A.V.

Revision History 

• Version 1.0: 2012-09-26
  Type: Initial release
• Version 1.1: 2012-11-21
  Type: Database references
• Version 1.2: 2019-01-30
  Type: Data collection, Experimental preparation, Other
• Version 1.3: 2019-02-06
  Type: Data collection, Experimental preparation