5JW8 | pdb_00005jw8

Crystal structure of the Type IV pilin subunit PilE from Neisseria meningitidis

• PDB DOI: https://doi.org/10.2210/pdb5JW8/pdb
• Entry: 5JW8 supersedes: 4XNP

• Classification: CELL ADHESION
• Organism(s): Neisseria meningitidis 8013
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-05-11 Released: 2016-07-06 
• Deposition Author(s): Kolappan, S., Craig, L.
• Funding Organization(s): Canadian Institutes of Health Research (CIHR)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.44 Å
• R-Value Free: 
  0.210 (Depositor), 0.213 (DCC) 
• R-Value Work: 
  0.187 (Depositor), 0.188 (DCC) 
• R-Value Observed: 
  0.188 (Depositor) 

Starting Model: experimental

Literature

Structure of the Neisseria meningitidis Type IV pilus.

Kolappan, S., Coureuil, M., Yu, X., Nassif, X., Egelman, E.H., Craig, L.

(2016) Nat Commun 7: 13015-13015

• PubMed: 27698424 
• DOI: https://doi.org/10.1038/ncomms13015
• Primary Citation Related Structures: 
  5JW8, 5KUA


• PubMed Abstract: 
  

  Neisseria meningitidis use Type IV pili (T4P) to adhere to endothelial cells and breach the blood brain barrier, causing cause fatal meningitis. T4P are multifunctional polymers of the major pilin protein, which share a conserved hydrophobic N terminus that is a curved extended α-helix, α1, in X-ray crystal structures. Here we report a 1.44 Å crystal structure of the N. meningitidis major pilin PilE and a ∼6 Å cryo-electron microscopy reconstruction of the intact pilus, from which we built an atomic model for the filament. This structure reveals the molecular arrangement of the N-terminal α-helices in the filament core, including a melted central portion of α1 and a bridge of electron density consistent with a predicted salt bridge necessary for pilus assembly. This structure has important implications for understanding pilus biology.

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Organizational Affiliation: 
• Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia, Canada V5A 1S6.
Institut Necker-Enfants Malades, INSERM U1151, Université Paris Descartes, 14 Rue Maria Helena Vieira Da Silva, CS 61431, 75014 Paris, France.
Department of Biochemistry and Molecular Genetics, University of Virginia School of Medicine, Charlottesville, Virginia 22908, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 14.48 kDa 
• Atom Count: 1,193 
• Modeled Residue Count: 133 
• Deposited Residue Count: 137 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Major pilin PilE	A	137	Neisseria meningitidis 8013	Mutation(s): 0  Gene Names: pilE, NMV_0019
UniProt
Find proteins for A0A1C7D1B2 (Neisseria meningitidis serogroup C (strain 8013)) Explore A0A1C7D1B2  Go to UniProtKB:  A0A1C7D1B2

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.44 Å
• R-Value Free:  0.210 (Depositor), 0.213 (DCC) 
• R-Value Work:  0.187 (Depositor), 0.188 (DCC) 
• R-Value Observed: 0.188 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.45	α = 90
b = 46.26	β = 90
c = 48.37	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2016-07-06 
Deposition Author(s): Kolappan, S., Craig, L.
• This entry supersedes: 4XNP

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Funding Organization	Location	Grant Number
Canadian Institutes of Health Research (CIHR)	Canada	MOP-125959

Revision History  

• Version 1.0: 2016-07-06
  Type: Initial release
  
• Version 1.1: 2016-10-26
  Changes: Database references
• Version 1.2: 2020-01-08
  Changes: Author supporting evidence, Derived calculations
• Version 1.3: 2023-09-27
  Changes: Data collection, Database references, Refinement description
• Version 1.4: 2024-11-13
  Changes: Structure summary