6EP4

Human butyrylcholinesterase in complex with decamethonium


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30005 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.179 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Comparison of the Binding of Reversible Inhibitors to Human Butyrylcholinesterase and Acetylcholinesterase: A Crystallographic, Kinetic and Calorimetric Study.

Rosenberry, T.L.Brazzolotto, X.Macdonald, I.R.Wandhammer, M.Trovaslet-Leroy, M.Darvesh, S.Nachon, F.

(2017) Molecules 22: --

  • DOI: 10.3390/molecules22122098
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Acetylcholinesterase (AChE) and butyrylcholinesterase (BChE) hydrolyze the neurotransmitter acetylcholine and, thereby, function as coregulators of cholinergic neurotransmission. Although closely related, these enzymes display very different substrat ...

    Acetylcholinesterase (AChE) and butyrylcholinesterase (BChE) hydrolyze the neurotransmitter acetylcholine and, thereby, function as coregulators of cholinergic neurotransmission. Although closely related, these enzymes display very different substrate specificities that only partially overlap. This disparity is largely due to differences in the number of aromatic residues lining the active site gorge, which leads to large differences in the shape of the gorge and potentially to distinct interactions with an individual ligand. Considerable structural information is available for the binding of a wide diversity of ligands to AChE. In contrast, structural data on the binding of reversible ligands to BChE are lacking. In a recent effort, an inhibitor competition approach was used to probe the overlap of ligand binding sites in BChE. Here, we extend this study by solving the crystal structures of human BChE in complex with five reversible ligands, namely, decamethonium, thioflavin T, propidium, huprine, and ethopropazine. We compare these structures to equivalent AChE complexes when available in the protein data bank and supplement this comparison with kinetic data and observations from isothermal titration calorimetry. This new information now allows us to define the binding mode of various ligand families and will be of importance in designing specific reversible ligands of BChE that behave as inhibitors or reactivators.


    Organizational Affiliation

    Département de Toxicologie et Risques Chimiques, Institut de Recherche Biomédicale des Armées, 91220 Brétigny-sur-Orge, France. marie.trovaslet-leroy@chemdef.fr.,Département de Toxicologie et Risques Chimiques, Institut de Recherche Biomédicale des Armées, 91220 Brétigny-sur-Orge, France. xavier.brazzolotto@chemdef.fr.,Department of Diagnostic Radiology, Dalhousie University, Halifax, NS B3H 4R2, Canada. Ian.MacDonald@Dal.Ca.,Département de Toxicologie et Risques Chimiques, Institut de Recherche Biomédicale des Armées, 91220 Brétigny-sur-Orge, France. florian@nachon.net.,Department of Medical Neuroscience, Dalhousie University, Halifax, NS B3H 4R2, Canada. Sultan.Darvesh@Dal.Ca.,Departments of Neuroscience and Pharmacology, Mayo Clinic College of Medicine, Jacksonville, FL 32224, USA. rosenberry@mayo.edu.,Department of Chemistry, Mount Saint Vincent University, Halifax, NS B3M 2J6, Canada. Sultan.Darvesh@Dal.Ca.,Department of Medicine (Neurology and Geriatric Medicine), Dalhousie University, Halifax, NS B3H 4R2, Canada. Sultan.Darvesh@Dal.Ca.,Département de Toxicologie et Risques Chimiques, Institut de Recherche Biomédicale des Armées, 91220 Brétigny-sur-Orge, France. marielle.wandhammer@chemdef.fr.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Cholinesterase
A
529Homo sapiensMutation(s): 4 
Gene Names: BCHE (CHE1)
EC: 3.1.1.8
Find proteins for P06276 (Homo sapiens)
Go to Gene View: BCHE
Go to UniProtKB:  P06276
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

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Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
CL
Query on CL

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Download CCD File 
A
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
DME
Query on DME

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Download CCD File 
A
DECAMETHONIUM ION
C16 H38 N2
MTCUAOILFDZKCO-UHFFFAOYSA-N
 Ligand Interaction
NAG
Query on NAG

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Download CCD File 
A
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
FUL
Query on FUL

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Download CCD File 
A
BETA-L-FUCOSE
6-DEOXY-BETA-L-GALACTOSE
C6 H12 O5
SHZGCJCMOBCMKK-KGJVWPDLSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30005 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.179 
  • Space Group: I 4 2 2
Unit Cell:
Length (Å)Angle (°)
a = 154.860α = 90.00
b = 154.860β = 90.00
c = 132.230γ = 90.00
Software Package:
Software NamePurpose
MOLREPphasing
XDSdata reduction
XSCALEdata scaling
PHENIXrefinement
Cootmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
French Ministry of DefenseFrance--

Revision History 

  • Version 1.0: 2017-12-13
    Type: Initial release