9N38 | pdb_00009n38

Cryo EM structure of LukAB (LukGH) toxin from Staphylococcus aureus in complex with neutralizing Fab STAU-15

• PDB DOI: https://doi.org/10.2210/pdb9N38/pdb
• EM Map EMD-48848: EMDB EMDataResource

• Classification: IMMUNE SYSTEM/Toxin
• Organism(s): Staphylococcus aureus, Homo sapiens
• Expression System: Escherichia coli BL21, Homo sapiens
• Mutation(s): No 


• Deposited: 2025-01-30 Released: 2026-02-04 
• Deposition Author(s): Binshtein, E., Crowe, J.E.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.90 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: in silico

Literature

Cryo EM structure of LukAB (LukGH) toxin from Staphylococcus aureus in complex with neutralizing Fab STAU-15

Binshtein, E., Crowe, J.E.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - A1B1C1D1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 97.7 kDa 
• Atom Count: 5,677 
• Modeled Residue Count: 703 
• Deposited Residue Count: 858 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
leukocidin-like protein 1	A	311	Staphylococcus aureus	Mutation(s): 0  Gene Names: SAUSA300_1974
UniProt
Find proteins for Q2FFA3 (Staphylococcus aureus (strain USA300)) Explore Q2FFA3  Go to UniProtKB:  Q2FFA3

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
leukocidin-like protein 2	B	319	Staphylococcus aureus	Mutation(s): 0  Gene Names: SAUSA300_1975
UniProt
Find proteins for Q2FFA2 (Staphylococcus aureus (strain USA300)) Explore Q2FFA2  Go to UniProtKB:  Q2FFA2

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
STAU-15 Heavy Chain	C [auth H]	121	Homo sapiens	Mutation(s): 0

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
STAU-15 Light Chain	D [auth L]	107	Homo sapiens	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.90 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2026-02-04 
Deposition Author(s): Binshtein, E., Crowe, J.E.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	R01 AI139172

Revision History  

• Version 1.0: 2026-02-04
  Type: Initial release