1QTI

Acetylcholinesterase (E.C.3.1.1.7)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.192 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Three-dimensional structure of a complex of galanthamine (Nivalin) with acetylcholinesterase from Torpedo californica: implications for the design of new anti-Alzheimer drugs

Bartolucci, C.Perola, E.Pilger, C.Fels, G.Lamba, D.

(2001) Proteins 42: 182-191

  • DOI: 10.1002/1097-0134(20010201)42:2<182::aid-prot50>3.0.co;2-1
  • Primary Citation of Related Structures:  
    1QTI

  • PubMed Abstract: 
  • The 3D structure of a complex of the anti-Alzheimer drug galanthamine with Torpedo californica acetylcholinesterase is reported. Galanthamine, a tertiary alkaloid extracted from several species of Amarylidacae, is so far the only drug that shows a du ...

    The 3D structure of a complex of the anti-Alzheimer drug galanthamine with Torpedo californica acetylcholinesterase is reported. Galanthamine, a tertiary alkaloid extracted from several species of Amarylidacae, is so far the only drug that shows a dual activity, being both an acetylcholinesterase inhibitor and an allosteric potentiator of the nicotinic response induced by acetylcholine and competitive agonists. The X-ray structure, at 2.5A resolution, shows an unexpected orientation of the ligand within the active site, as well as unusual protein-ligand interactions. The inhibitor binds at the base of the active site gorge, interacting with both the acyl-binding pocket and the principal quaternary ammonium-binding site. However, the tertiary amine group of galanthamine does not directly interact with Trp84. A docking study using the program AUTODOCK correctly predicts the orientation of galanthamine in the active site. The docked lowest-energy structure has a root mean square deviation of 0.5A with respect to the corresponding crystal structure of the complex. The observed binding mode explains the affinities of a series of structural analogs of galanthamine and provides a rational basis for structure-based drug design of synthetic derivatives with improved pharmacological properties. Proteins 2001;42:182-191.


    Related Citations: 
    • Atomic Structure of Acetylcholinesterase from Torpedo californica: A Prototypic Acetylcholine-Binding Protein
      Sussman, J.L., Harel, M., Frolow, F., Oefner, C., Goldman, A., Toker, L., Silman, I.
      (1991) Science 253: 872
    • Potent Acetylcholinesterase Inhibitors-Design, Synthesis, and Structure- Activity Relationships of Bis-Interacting Ligands in the Galanthamine Series
      Mary, A., Renko, D.Z., Guillou, C., Thal, C.
      (1998) Bioorg Med Chem 6: 1835
    • New Kilogram-Synthesis of the Anti-Alzheimer Drug (-)-Galanthamine
      Czollner, L., Frantsits, W., Kuenburg, B., Hedenig, U., Frohlich, J., Jordis, U.
      (1998) Tetrahedron Lett 39: 2087
    • Prediction of the Binding Site of (-)-Galanthamine in Acetylcholinesterase by Docking Studies
      Pilger, C., Bartolucci, C., Lamba, D., Tropsha, A., Fels, G.
      () To be published --: --

    Organizational Affiliation

    Istituto di Strutturistica Chimica G. Giacomello, Monterotondo Stazione, Roma, Italy.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ACETYLCHOLINESTERASEA537Tetronarce californicaMutation(s): 0 
Gene Names: ache
EC: 3.1.1.7
Find proteins for P04058 (Tetronarce californica)
Explore P04058 
Go to UniProtKB:  P04058
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GNT
Query on GNT

Download CCD File 
A
(-)-GALANTHAMINE
C17 H21 N O3
ASUTZQLVASHGKV-JDFRZJQESA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
GNTKi:  190   nM  BindingDB
GNTIC50:  590   nM  BindingDB
GNTIC50 :  360   nM  PDBBind
GNTIC50:  652   nM  BindingDB
GNTIC50:  360   nM  BindingDB
GNTIC50:  418   nM  BindingDB
GNTIC50:  550   nM  BindingDB
GNTIC50:  1069   nM  BindingDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.192 
  • Space Group: P 31 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 110.824α = 90
b = 110.824β = 90
c = 136.445γ = 120
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
X-PLORmodel building
X-PLORrefinement
X-PLORphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1999-12-29
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance