1PDK | pdb_00001pdk

PAPD-PAPK CHAPERONE-PILUS SUBUNIT COMPLEX FROM E.COLI P PILUS

• PDB DOI: https://doi.org/10.2210/pdb1PDK/pdb

• Classification: CHAPERONE
• Organism(s): Escherichia coli
• Mutation(s): No 


• Deposited: 1999-03-29 Released: 1999-08-17 
• Deposition Author(s): Fuetterer, K., Sauer, F.G., Hultgren, S.J., Waksman, G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 
  0.273 (Depositor) 
• R-Value Work: 
  0.235 (Depositor) 

Literature

Structural basis of chaperone function and pilus biogenesis.

Sauer, F.G., Futterer, K., Pinkner, J.S., Dodson, K.W., Hultgren, S.J., Waksman, G.

(1999) Science 285: 1058-1061

• PubMed: 10446050 
• DOI: https://doi.org/10.1126/science.285.5430.1058
• Primary Citation Related Structures: 
  1PDK


• PubMed Abstract: 
  

  Many Gram-negative pathogens assemble architecturally and functionally diverse adhesive pili on their surfaces by the chaperone-usher pathway. Immunoglobulin-like periplasmic chaperones escort pilus subunits to the usher, a large protein complex that facilitates the translocation and assembly of subunits across the outer membrane. The crystal structure of the PapD-PapK chaperone-subunit complex, determined at 2.4 angstrom resolution, reveals that the chaperone functions by donating its G(1) beta strand to complete the immunoglobulin-like fold of the subunit via a mechanism termed donor strand complementation. The structure of the PapD-PapK complex also suggests that during pilus biogenesis, every subunit completes the immunoglobulin-like fold of its neighboring subunit via a mechanism termed donor strand exchange.

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Organizational Affiliation: 
• Department of Molecular Microbiology, Washington University School of Medicine, 660 South Euclid Avenue, St. Louis, MO 63110, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Macromolecule Content 

• Total Structure Weight: 41.45 kDa 
• Atom Count: 2,903 
• Modeled Residue Count: 364 
• Deposited Residue Count: 375 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (CHAPERONE PROTEIN PAPD)	A	218	Escherichia coli	Mutation(s): 0
UniProt
Find proteins for P15319 (Escherichia coli) Explore P15319  Go to UniProtKB:  P15319

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (PROTEIN PAPK)	B	157	Escherichia coli	Mutation(s): 0
UniProt
Find proteins for P62532 (Escherichia coli) Explore P62532  Go to UniProtKB:  P62532

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free:  0.273 (Depositor) 
• R-Value Work:  0.235 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.12	α = 90
b = 63.69	β = 90
c = 92.72	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SHARP	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-08-17 
Deposition Author(s): Fuetterer, K., Sauer, F.G., Hultgren, S.J., Waksman, G.

Revision History  

• Version 1.0: 1999-08-17
  Type: Initial release
  
• Version 1.1: 2008-04-26
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-12-27
  Changes: Data collection, Database references
• Version 1.4: 2024-10-30
  Changes: Structure summary