1M3I | pdb_00001m3i

Perfringolysin O, new crystal form

• PDB DOI: https://doi.org/10.2210/pdb1M3I/pdb

• Classification: TOXIN
• Organism(s): Clostridium perfringens
• Expression System: Escherichia coli
• Mutation(s): No 
• Membrane Protein: Yes  mpstruc


• Deposited: 2002-06-28 Released: 2004-02-03 
• Deposition Author(s): Rossjohn, J., Parker, M., Polekhina, G., Feil, S., Tweten, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 
  0.280 (Depositor) 
• R-Value Work: 
  0.233 (Depositor) 

Starting Model: experimental

Literature

Structural Snapshots in the Molecular Mechanism of PFO Revealed

Rossjohn, J., Parker, M., Polekhina, G., Feil, S., Tweten, R.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Biological Assembly 4  

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

Biological assembly 4 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 210.29 kDa 
• Atom Count: 14,920 
• Modeled Residue Count: 1,860 
• Deposited Residue Count: 1,884 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
perfringolysin O	A, B, C, D	471	Clostridium perfringens	Mutation(s): 0  Gene Names: pfoa Membrane Entity: Yes
UniProt
Find proteins for P0C2E9 (Clostridium perfringens (strain 13 / Type A)) Explore P0C2E9  Go to UniProtKB:  P0C2E9

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free:  0.280 (Depositor) 
• R-Value Work:  0.233 (Depositor) 

Space Group: P 3₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 130.41	α = 90
b = 130.41	β = 90
c = 129.9	γ = 120

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-02-03 
Deposition Author(s): Rossjohn, J., Parker, M., Polekhina, G., Feil, S., Tweten, R.

Revision History  

• Version 1.0: 2004-02-03
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-02-14
  Changes: Data collection, Database references, Refinement description