9GKQ | pdb_00009gkq

Cryo-EM structure of Botulinum neurotoxin serotype A

• PDB DOI: https://doi.org/10.2210/pdb9GKQ/pdb
• EM Map EMD-51433: EMDB EMDataResource

• Classification: TOXIN
• Organism(s): Clostridium botulinum
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-08-26 Released: 2025-09-10 
• Deposition Author(s): Zerang, Z., Liu, Z., He, J., Wang, X., Qi, F., Lei, D., Zhi, D., Wang, D.
• Funding Organization(s): National Natural Science Foundation of China (NSFC), Other government

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.85 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM Structure guided engineering of botulinum neurotoxin A with advanced receptor binding affinity and therapeutical benefits

You, L., Wang, W., Zerang, Z., Liu, Z., Nie, R., Zhao, C., He, J., Wang, X., Qi, F., Liu, F., Wu, S., Liu, B., Lei, D., Zhi, D., Wang, D.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 151.02 kDa 
• Atom Count: 10,253 
• Modeled Residue Count: 1,257 
• Deposited Residue Count: 1,308 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Botulinum neurotoxin type A	A	1,308	Clostridium botulinum	Mutation(s): 0  Gene Names: botA, bna, CBO0806, CLC_0862
UniProt
Find proteins for P0DPI1 (Clostridium botulinum (strain Hall / ATCC 3502 / NCTC 13319 / Type A)) Explore P0DPI1  Go to UniProtKB:  P0DPI1

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.85 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: 2025-09-10 
Deposition Author(s): Zerang, Z., Liu, Z., He, J., Wang, X., Qi, F., Lei, D., Zhi, D., Wang, D.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	82073825
National Natural Science Foundation of China (NSFC)	China	32171300
Other government		22ZD6FA053
Other government		20JR10RA619
Other government		lzuyxcx-2022-197

Revision History  

• Version 1.0: 2025-09-10
  Type: Initial release