9DOB | pdb_00009dob

Membrane-bound OlyA (E69A)/PlyB (Hinge-Lock) prepore focused refinement

• PDB DOI: https://doi.org/10.2210/pdb9DOB/pdb
• EM Map EMD-47078: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Pleurotus ostreatus
• Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
• Mutation(s): Yes 


• Deposited: 2024-09-18 Released: 2025-09-24 
• Deposition Author(s): Smothers, J., Chen, Z., Li, Y., Han, Y., Radhakrishnan, A.
• Funding Organization(s): National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI), National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), Welch Foundation, Leducq Foundation

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.27 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Membrane-bound OlyA (E69A)/PlyB (Hinge-Lock) prepore

Smothers, J., Chen, Z., Li, Y., Han, Y., Radhakrishnan, A.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 6-mer - A4B2 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 181.14 kDa 
• Atom Count: 11,884 
• Modeled Residue Count: 1,432 
• Deposited Residue Count: 1,538 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ostreolysin A6	A, B, D [auth L], E [auth M]	143	Pleurotus ostreatus	Mutation(s): 1  Gene Names: OlyA6
UniProt
Find proteins for P83467 (Pleurotus ostreatus) Explore P83467  Go to UniProtKB:  P83467

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Pleurotolysin B	C, F [auth N]	483	Pleurotus ostreatus	Mutation(s): 0  Gene Names: plyB
UniProt
Find proteins for Q5W9E8 (Pleurotus ostreatus) Explore Q5W9E8  Go to UniProtKB:  Q5W9E8

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1A8R (Subject of Investigation/LOI)	G [auth A], H [auth A], I [auth A], J [auth A], K [auth B], L [auth B], M [auth B], N [auth B], O [auth L], P [auth L], Q [auth L], R [auth L], S [auth M], T [auth M], U [auth M], V [auth M]	N-oleoyl-D-erythro-sphingosylphosphorylcholine C41 H82 N2 O6 P NBEADXWAAWCCDG-QDDWGVBQSA-O

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.27 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-09-24 
Deposition Author(s): Smothers, J., Chen, Z., Li, Y., Han, Y., Radhakrishnan, A.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI)	United States	HL160487
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	AI158357
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	T32GM131963
Welch Foundation	United States	I-1793
Leducq Foundation	France	19CVD04

Revision History  

• Version 1.0: 2025-09-24
  Type: Initial release