6UJI

Low resolution crystal structure (5.5 A) of the anthrax toxin protective antigen heptamer prepore D425A mutant


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 5.50 Å
  • R-Value Free: 0.278 
  • R-Value Work: 0.251 
  • R-Value Observed: 0.253 

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This is version 1.2 of the entry. See complete history


Literature

Structure of the anthrax protective antigen D425A dominant negative mutant reveals a stalled intermediate state of pore maturation.

Scott, H.Huang, W.Andra, K.Mamillapalli, S.Gonti, S.Day, A.Zhang, K.Mehzabeen, N.Battaile, K.P.Raju, A.Lovell, S.Bann, J.G.Taylor, D.J.

(2022) J Mol Biol : 167548-167548

  • DOI: https://doi.org/10.1016/j.jmb.2022.167548
  • Primary Citation of Related Structures:  
    6UJI

  • PubMed Abstract: 

    The tripartite protein complex produced by anthrax bacteria (Bacillus anthracis) is a member of the AB family of β-barrel pore-forming toxins. The protective antigen (PA) component forms an oligomeric prepore that assembles on the host cell surface and serves as a scaffold for binding of lethal and edema factors. Following endocytosis, the acidic environment of the late endosome triggers a pH-induced conformational rearrangement to promote maturation of the PA prepore to a functional, membrane spanning pore that facilitates delivery of lethal and edema factors to the cytosol of the infected host. Here, we show that the dominant-negative D425A mutant of PA stalls anthrax pore maturation in an intermediate state at acidic pH. Our 2.7 Å cryo-EM structure of the intermediate state reveals structural rearrangements that involve constriction of the oligomeric pore combined with an intramolecular dissociation of the pore-forming module. In addition to defining the early stages of anthrax pore maturation, the structure identifies asymmetric conformational changes in the oligomeric pore that are influenced by the precise configuration of adjacent protomers.


  • Organizational Affiliation

    Department of Pharmacology, Case Western Reserve University, Cleveland, OH 44106, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Protective antigen PA-63
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L, M, N
568Bacillus anthracisMutation(s): 1 
Gene Names: pagApagpXO1-110BXA0164GBAA_pXO1_0164
UniProt
Find proteins for P13423 (Bacillus anthracis)
Explore P13423 
Go to UniProtKB:  P13423
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP13423
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 5.50 Å
  • R-Value Free: 0.278 
  • R-Value Work: 0.251 
  • R-Value Observed: 0.253 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 166.18α = 90
b = 144.247β = 102.41
c = 304.825γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
Aimlessdata scaling
PHASERphasing
BUSTERrefinement
PDB_EXTRACTdata extraction

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesP30 GM110761

Revision History  (Full details and data files)

  • Version 1.0: 2020-10-07
    Type: Initial release
  • Version 1.1: 2022-03-30
    Changes: Database references
  • Version 1.2: 2023-10-11
    Changes: Data collection, Refinement description