1DFQ | pdb_00001dfq

THE HC FRAGMENT OF TETANUS TOXIN COMPLEXED WITH SIALIC ACID

• PDB DOI: https://doi.org/10.2210/pdb1DFQ/pdb

• Classification: TOXIN
• Organism(s): Clostridium tetani
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1999-11-20 Released: 2000-03-24 
• Deposition Author(s): Emsley, P., Fotinou, C., Black, I., Fairweather, N.F., Charles, I.G., Watts, C., Hewitt, E., Isaacs, N.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 
  0.313 (Depositor), 0.297 (DCC) 
• R-Value Work: 
  0.200 (Depositor), 0.195 (DCC) 
• R-Value Observed: 
  0.200 (Depositor) 

Literature

The structures of the H(C) fragment of tetanus toxin with carbohydrate subunit complexes provide insight into ganglioside binding.

Emsley, P., Fotinou, C., Black, I., Fairweather, N.F., Charles, I.G., Watts, C., Hewitt, E., Isaacs, N.W.

(2000) J Biological Chem 275: 8889-8894

• PubMed: 10722735 
• DOI: https://doi.org/10.1074/jbc.275.12.8889
• Primary Citation Related Structures: 
  1D0H, 1DFQ, 1DIW, 1DLL


• PubMed Abstract: 
  

  The entry of tetanus neurotoxin into neuronal cells proceeds through the initial binding of the toxin to gangliosides on the cell surface. The carboxyl-terminal fragment of the heavy chain of tetanus neurotoxin contains the ganglioside-binding site, which has not yet been fully characterized. The crystal structures of native H(C) and of H(C) soaked with carbohydrates reveal a number of binding sites and provide insight into the possible mode of ganglioside binding.

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Organizational Affiliation: 
• Department of Chemistry, University of Glasgow, Glasgow G12 8QQ, United Kingdom.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 51.14 kDa 
• Atom Count: 3,805 
• Modeled Residue Count: 441 
• Deposited Residue Count: 444 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TETANUS TOXIN HC	A	444	Clostridium tetani	Mutation(s): 0  EC: 3.4.24.68
UniProt
Find proteins for P04958 (Clostridium tetani (strain Massachusetts / E88)) Explore P04958  Go to UniProtKB:  P04958

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SLB	B [auth A]	N-acetyl-beta-neuraminic acid C11 H19 N O9 SQVRNKJHWKZAKO-PFQGKNLYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free:  0.313 (Depositor), 0.297 (DCC) 
• R-Value Work:  0.200 (Depositor), 0.195 (DCC) 
• R-Value Observed: 0.200 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.86	α = 90
b = 70.24	β = 90
c = 122.52	γ = 90

Software Package:

Software Name	Purpose
AMoRE	phasing
REFMAC	refinement
MOSFLM	data reduction
CCP4	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-03-24 
Deposition Author(s): Emsley, P., Fotinou, C., Black, I., Fairweather, N.F., Charles, I.G., Watts, C., Hewitt, E., Isaacs, N.W.

Revision History  

• Version 1.0: 2000-03-24
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.4: 2024-02-07
  Changes: Data collection, Database references, Structure summary