1M3J | pdb_00001m3j

CRYSTAL form II of perfringolysin O

• PDB DOI: https://doi.org/10.2210/pdb1M3J/pdb

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


• Deposited: 2002-06-28 Released: 2003-09-02 
• 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: 3.00 Å
• R-Value Free: 
  0.337 (Depositor) 
• R-Value Work: 
  0.247 (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.

Macromolecule Content 

• Total Structure Weight: 105.14 kDa 
• Atom Count: 7,467 
• Modeled Residue Count: 942 
• Deposited Residue Count: 942 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
perfringolysin o	A, B	471	Clostridium perfringens	Mutation(s): 0  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: 3.00 Å
• R-Value Free:  0.337 (Depositor) 
• R-Value Work:  0.247 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 167	α = 90
b = 214.11	β = 90
c = 47.07	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
X-PLOR	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-09-02 
Deposition Author(s): Rossjohn, J., Parker, M., Polekhina, G., Feil, S., Tweten, R.

Revision History  

• Version 1.0: 2003-09-02
  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