Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 304.98 kDa 
• Atom Count: 11000 
• Residue Count: 1303 
• Unique protein chains: 2

6G5F

Crystal structure of an engineered Botulinum Neurotoxin type B mutant E1191M/S1199Y in complex with human synaptotagmin 1

• DOI: 10.2210/pdb6G5F/pdb

• Classification: TOXIN
• Organism(s): Clostridium botulinum, Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2018-03-29 Released: 2019-01-16 
• Deposition Author(s): Masuyer, G., Elliot, M., Favre-Guilmard, C., Liu, S.M., Maignel, J., Beard, M., Carre, D., Kalinichev, M., Lezmi, S., Mir, I., Nicoleau, C., Palan, S., Perier, C., Raban, E., Dong, M., Krupp, J., Stenmark, P.
• Funding Organization(s): Swedish Research Council

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.232 
• R-Value Work: 0.202 
• R-Value Observed: 0.203 

Literature

Engineered botulinum neurotoxin B with improved binding to human receptors has enhanced efficacy in preclinical models.

Elliott, M., Favre-Guilmard, C., Liu, S.M., Maignel, J., Masuyer, G., Beard, M., Boone, C., Carre, D., Kalinichev, M., Lezmi, S., Mir, I., Nicoleau, C., Palan, S., Perier, C., Raban, E., Zhang, S., Dong, M., Stenmark, P., Krupp, J.

(2019) Sci Adv 5: eaau7196-eaau7196

• PubMed: 30746458 
• DOI: 10.1126/sciadv.aau7196
• Primary Citation of Related Structures:  
  6G5G, 6G5F, 6G5K


• PubMed Abstract: 
  

Although botulinum neurotoxin serotype A (BoNT/A) products are common treatments for various disorders, there is only one commercial BoNT/B product, whose low potency, likely stemming from low affinity toward its human receptor synaptotagmin 2 (hSyt2), has limited its therapeutic usefulness. We express and characterize two full-length recombinant BoNT/B1 proteins containing designed mutations E1191M/S1199Y (rBoNT/B1 _MY ) and E1191Q/S1199W (rBoNT/B1 _QW ) that enhance binding to hSyt2. In preclinical models including human-induced pluripotent stem cell neurons and a humanized transgenic mouse, this increased hSyt2 affinity results in high potency, comparable to that of BoNT/A. Last, we solve the cocrystal structure of rBoNT/B1 _MY in complex with peptides of hSyt2 and its homolog hSyt1. We demonstrate that neuronal surface receptor binding limits the clinical efficacy of unmodified BoNT/B and that modified BoNT/B proteins have promising clinical potential.

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Organizational Affiliation: 

Ipsen Innovation, 5 Avenue du Canada, 91940 Les Ulis, France.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Botulinum neurotoxin type B	A, B	1291	Clostridium botulinum	Mutation(s): 4  Gene Names: botB EC: 3.4.24.69
Find proteins for P10844 (Clostridium botulinum) Explore P10844  Go to UniProtKB:  P10844

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Synaptotagmin-1	P	21	Homo sapiens	Mutation(s): 0  Gene Names: SYT1, SVP65, SYT
Find proteins for P21579 (Homo sapiens) Explore P21579  Go to UniProtKB:  P21579
NIH Common Fund Data Resources
PHAROS:  P21579 GTEx:  ENSG00000067715

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MLI	B	MALONATE ION C3 H2 O4 OFOBLEOULBTSOW-UHFFFAOYSA-L
GOL	A	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.232 
• R-Value Work: 0.202 
• R-Value Observed: 0.203 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 176.078	α = 90
b = 356.419	β = 90
c = 103.939	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2018-03-29 
• Released Date: 2019-01-16 
Deposition Author(s): Masuyer, G., Elliot, M., Favre-Guilmard, C., Liu, S.M., Maignel, J., Beard, M., Carre, D., Kalinichev, M., Lezmi, S., Mir, I., Nicoleau, C., Palan, S., Perier, C., Raban, E., Dong, M., Krupp, J., Stenmark, P.

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Funding Organization	Location	Grant Number
Swedish Research Council	Sweden	--

Revision History 

• Version 1.0: 2019-01-16
  Type: Initial release
  
• Version 1.1: 2019-02-20
  Changes: Data collection, Database references