3RSJ

Structure of HCRF in complex with Ganglioside GD1a

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.232 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history. 

Literature

Unique ganglioside recognition strategies for clostridial neurotoxins.

Benson, M.A., Fu, Z., Kim, J.J., Baldwin, M.R.

(2011) J.Biol.Chem. 286: 34015-34022

  • DOI: 10.1074/jbc.M111.272054

  • PubMed Abstract: 

    • Botulinum neurotoxins (BoNTs) and tetanus neurotoxin are the causative agents of the paralytic diseases botulism and tetanus, respectively. The potency of the clostridial neurotoxins (CNTs) relies primarily on their highly specific binding to nerve t ...

    Botulinum neurotoxins (BoNTs) and tetanus neurotoxin are the causative agents of the paralytic diseases botulism and tetanus, respectively. The potency of the clostridial neurotoxins (CNTs) relies primarily on their highly specific binding to nerve terminals and cleavage of SNARE proteins. Although individual CNTs utilize distinct proteins for entry, they share common ganglioside co-receptors. Here, we report the crystal structure of the BoNT/F receptor-binding domain in complex with the sugar moiety of ganglioside GD1a. GD1a binds in a shallow groove formed by the conserved peptide motif E … H … SXWY … G, with additional stabilizing interactions provided by two arginine residues. Comparative analysis of BoNT/F with other CNTs revealed several differences in the interactions of each toxin with ganglioside. Notably, exchange of BoNT/F His-1241 with the corresponding lysine residue of BoNT/E resulted in increased affinity for GD1a and conferred the ability to bind ganglioside GM1a. Conversely, BoNT/E was not able to bind GM1a, demonstrating a discrete mechanism of ganglioside recognition. These findings provide a structural basis for ganglioside binding among the CNTs and show that individual toxins utilize unique ganglioside recognition strategies.

    Organizational Affiliation: 

    Department of Molecular Microbiology and Immunology, University of Missouri, Columbia, Missouri 65212, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
BoNT/F
A, B, C, D
413Clostridium botulinum (strain Langeland / NCTC 10281 / Type F)Mutation(s): 0 
Gene Names: F (bont, boNT/F)
Find proteins for A7GBG3 (Clostridium botulinum (strain Langeland / NCTC 10281 / Type F))
Go to UniProtKB:  A7GBG3
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GAL
Query on GAL
Download SDF File 
Download CCD File 
A, B, C, D
BETA-D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-FPRJBGLDSA-N
 Ligand Interaction
NGA
Query on NGA
Download SDF File 
Download CCD File 
A, B, C, D
N-ACETYL-D-GALACTOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-JAJWTYFOSA-N
 Ligand Interaction
SIA
Query on SIA
Download SDF File 
Download CCD File 
A, B, C, D
O-SIALIC ACID
C11 H19 N O9
SQVRNKJHWKZAKO-YRMXFSIDSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.232 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 65.468α = 72.55
b = 84.266β = 87.01
c = 117.600γ = 67.13
Software Package:
Software NamePurpose
MOLREPphasing
HKL-3000data scaling
ADSCdata collection
HKL-3000data reduction
CNSrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots


View more in-depth experimental data

Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-08-17
    Type: Initial release
  • Version 1.1: 2011-08-31
    Type: Database references
  • Version 1.2: 2011-10-12
    Type: Database references
  • Version 1.3: 2018-01-24
    Type: Structure summary