4EY5

Crystal Structure of Recombinant Human Acetylcholinesterase in Complex with (-)-huperzine A


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.212 
  • R-Value Work: 0.176 
  • R-Value Observed: 0.177 

wwPDB Validation 3D Report Full Report



Literature

Structures of human acetylcholinesterase in complex with pharmacologically important ligands.

Cheung, J.Rudolph, M.J.Burshteyn, F.Cassidy, M.S.Gary, E.N.Love, J.Franklin, M.C.Height, J.J.

(2012) J Med Chem 55: 10282-10286

  • DOI: 10.1021/jm300871x
  • Primary Citation of Related Structures:  
    4EY8, 4EY4, 4EY5, 4EY6, 4EY7

  • PubMed Abstract: 
  • Human acetylcholinesterase (AChE) is a significant target for therapeutic drugs. Here we present high resolution crystal structures of human AChE, alone and in complexes with drug ligands; donepezil, an Alzheimer's disease drug, binds differently to ...

    Human acetylcholinesterase (AChE) is a significant target for therapeutic drugs. Here we present high resolution crystal structures of human AChE, alone and in complexes with drug ligands; donepezil, an Alzheimer's disease drug, binds differently to human AChE than it does to Torpedo AChE. These crystals of human AChE provide a more accurate platform for further drug development than previously available.


    Organizational Affiliation

    New York Structural Biology Center, New York, New York 10027, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
AcetylcholinesteraseAB542Homo sapiensMutation(s): 0 
Gene Names: ACHE
EC: 3.1.1.7
Find proteins for P22303 (Homo sapiens)
Explore P22303 
Go to UniProtKB:  P22303
NIH Common Fund Data Resources
PHAROS  P22303
Protein Feature View
Expand
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence
Oligosaccharides

Help

Entity ID: 2
MoleculeChainsChain Length2D Diagram Glycosylation
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose
C, D
3 N-Glycosylation
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
HUP
Query on HUP

Download CCD File 
A, B
Huperzine A
C15 H18 N2 O
ZRJBHWIHUMBLCN-YQEJDHNASA-N
 Ligand Interaction
NAG
Query on NAG

Download CCD File 
B
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
DMS
Query on DMS

Download CCD File 
A, B
DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
 Ligand Interaction
EDO
Query on EDO

Download CCD File 
A, B
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
NO3
Query on NO3

Download CCD File 
B
NITRATE ION
N O3
NHNBFGGVMKEFGY-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
HUPIC50:  53   nM  BindingDB
HUPIC50:  53   nM  BindingDB
HUPIC50:  65   nM  BindingDB
HUPIC50:  74   nM  BindingDB
HUPIC50:  21   nM  BindingDB
HUPIC50:  260   nM  BindingDB
HUPIC50:  72.4000015258789   nM  BindingDB
HUPIC50:  1700   nM  BindingDB
HUPIC50:  120   nM  BindingDB
HUPIC50:  400   nM  BindingDB
HUPIC50:  45   nM  BindingDB
HUPIC50:  47   nM  BindingDB
HUPIC50:  82   nM  BindingDB
HUPIC50:  600   nM  BindingDB
HUPIC50:  98   nM  BindingDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.212 
  • R-Value Work: 0.176 
  • R-Value Observed: 0.177 
  • Space Group: P 31 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 105.222α = 90
b = 105.222β = 90
c = 323.289γ = 120
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-10-17
    Type: Initial release
  • Version 1.1: 2012-12-12
    Changes: Database references
  • Version 1.2: 2013-10-23
    Changes: Non-polymer description
  • Version 1.3: 2017-11-15
    Changes: Refinement description
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Atomic model, Data collection, Derived calculations, Structure summary