5K93

PapD wild-type chaperone


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.220 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

The Escherichia coli P and Type 1 Pilus Assembly Chaperones PapD and FimC Are Monomeric in Solution.

Sarowar, S.Hu, O.J.Werneburg, G.T.Thanassi, D.G.Li, H.

(2016) J.Bacteriol. 198: 2360-2369

  • DOI: 10.1128/JB.00366-16

  • PubMed Abstract: 
  • The chaperone/usher pathway is used by Gram-negative bacteria to assemble adhesive surface structures known as pili or fimbriae. Uropathogenic strains of Escherichia coli use this pathway to assemble P and type 1 pili, which facilitate colonization o ...

    The chaperone/usher pathway is used by Gram-negative bacteria to assemble adhesive surface structures known as pili or fimbriae. Uropathogenic strains of Escherichia coli use this pathway to assemble P and type 1 pili, which facilitate colonization of the kidney and bladder, respectively. Pilus assembly requires a periplasmic chaperone and outer membrane protein termed the usher. The chaperone allows folding of pilus subunits and escorts the subunits to the usher for polymerization into pili and secretion to the cell surface. Based on previous structures of mutant versions of the P pilus chaperone PapD, it was suggested that the chaperone dimerizes in the periplasm as a self-capping mechanism. Such dimerization is counterintuitive because the chaperone G1 strand, important for chaperone-subunit interaction, is buried at the dimer interface. Here, we show that the wild-type PapD chaperone also forms a dimer in the crystal lattice; however, the dimer interface is different from the previously solved structures. In contrast to the crystal structures, we found that both PapD and the type 1 pilus chaperone, FimC, are monomeric in solution. Our findings indicate that pilus chaperones do not sequester their G1 β-strand by forming a dimer. Instead, the chaperones may expose their G1 strand for facile interaction with pilus subunits. We also found that the type 1 pilus adhesin, FimH, is flexible in solution while in complex with its chaperone, whereas the P pilus adhesin, PapGII, is rigid. Our study clarifies a crucial step in pilus biogenesis and reveals pilus-specific differences that may relate to biological function.


    Organizational Affiliation

    Department of Biochemistry and Cell Biology, Stony Brook University, Stonybrook, New York, USA Biology Department, Brookhaven National Laboratory, Stonybrook, New York, USA hli@bnl.gov.,Department of Biochemistry and Cell Biology, Stony Brook University, Stonybrook, New York, USA Biology Department, Brookhaven National Laboratory, Stonybrook, New York, USA.,Department of Molecular Genetics and Microbiology, Stony Brook University, Stonybrook, New York, USA Center for Infectious Diseases, Stony Brook University, Stonybrook, New York, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Chaperone protein PapD
A, B
222Escherichia coliMutation(s): 0 
Gene Names: papD
Find proteins for P15319 (Escherichia coli)
Go to UniProtKB:  P15319
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.220 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 83.129α = 90.00
b = 70.989β = 102.05
c = 93.050γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
PHENIXphasing
HKL-2000data scaling
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2016-05-31 
  • Released Date: 2016-07-20 
  • Deposition Author(s): Sarowar, S., Li, H.

Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical SciencesUnited StatesT32 GM008468
National Institutes of Health/National Institute of General Medical SciencesUnited StatesR01 GM062987

Revision History 

  • Version 1.0: 2016-07-20
    Type: Initial release
  • Version 1.1: 2016-08-24
    Type: Database references
  • Version 1.2: 2017-09-06
    Type: Data collection, Database references, Derived calculations
  • Version 1.3: 2017-09-20
    Type: Author supporting evidence