Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

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

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

Macromolecule Content

• Total Structure Weight: 51.71 kDa 
• Atom Count: 3825 
• Modelled Residue Count: 423 
• Deposited Residue Count: 444 
• Unique protein chains: 1

2VUA

Crystal Structure of the Botulinum Neurotoxin Serotype A binding domain

• PDB DOI: 10.2210/pdb2VUA/pdb

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


• Deposited: 2008-05-22 Released: 2008-08-26 
• Deposition Author(s): Stenmark, P., Dupuy, J., Stevens, R.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.205 
• R-Value Work: 0.168 
• R-Value Observed: 0.170 

Literature

Crystal Structure of Botulinum Neurotoxin Type a in Complex with the Cell Surface Co-Receptor Gt1B- Insight Into the Toxin-Neuron Interaction.

Stenmark, P., Dupuy, J., Imamura, A., Kiso, M., Stevens, R.C.

(2008) PLoS Pathog 4: E129

• PubMed: 18704164 
• DOI: 10.1371/journal.ppat.1000129
• Primary Citation of Related Structures:  
  2VU9, 2VUA


• PubMed Abstract: 
  

Botulinum neurotoxins have a very high affinity and specificity for their target cells requiring two different co-receptors located on the neuronal cell surface. Different toxin serotypes have different protein receptors; yet, most share a common ganglioside co-receptor, GT1b. We determined the crystal structure of the botulinum neurotoxin serotype A binding domain (residues 873-1297) alone and in complex with a GT1b analog at 1.7 A and 1.6 A, respectively. The ganglioside GT1b forms several key hydrogen bonds to conserved residues and binds in a shallow groove lined by Tryptophan 1266. GT1b binding does not induce any large structural changes in the toxin; therefore, it is unlikely that allosteric effects play a major role in the dual receptor recognition. Together with the previously published structures of botulinum neurotoxin serotype B in complex with its protein co-receptor, we can now generate a detailed model of botulinum neurotoxin's interaction with the neuronal cell surface. The two branches of the GT1b polysaccharide, together with the protein receptor site, impose strict geometric constraints on the mode of interaction with the membrane surface and strongly support a model where one end of the 100 A long translocation domain helix bundle swing into contact with the membrane, initiating the membrane anchoring event.

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Organizational Affiliation: 

Department of Molecular Biology, The Scripps Research Institute, La Jolla, California, United States of America.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BOTULINUM NEUROTOXIN A HEAVY CHAIN	A	444	Clostridium botulinum	Mutation(s): 0  EC: 3.4.24.69
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: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.205 
• R-Value Work: 0.168 
• R-Value Observed: 0.170 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 73	α = 90
b = 114.5	β = 90
c = 105.8	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2008-05-22 
• Released Date: 2008-08-26 
Deposition Author(s): Stenmark, P., Dupuy, J., Stevens, R.C.

Revision History  

• Version 1.0: 2008-08-26
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance