6O50

Binary complex of native hAChE with BW284c51


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.352 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.204 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

A new crystal form of human acetylcholinesterase for exploratory room-temperature crystallography studies.

Gerlits, O.Ho, K.Y.Cheng, X.Blumenthal, D.Taylor, P.Kovalevsky, A.Radic, Z.

(2019) Chem.Biol.Interact. 309: 108698-108698

  • DOI: 10.1016/j.cbi.2019.06.011
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Structure-guided design of novel pharmacologically active molecules relies at least in part on functionally relevant accuracy of macromolecular structures for template based drug design. Currently, about 95% of all macromolecular X-ray structures ava ...

    Structure-guided design of novel pharmacologically active molecules relies at least in part on functionally relevant accuracy of macromolecular structures for template based drug design. Currently, about 95% of all macromolecular X-ray structures available in the PDB (Protein Data Bank) were obtained from diffraction experiments at low, cryogenic temperatures. However, it is known that functionally relevant conformations of both macromolecules and pharmacological ligands can differ at higher, physiological temperatures. We describe in this article development and properties of new human acetylcholinesterase (AChE) crystals of space group P3 1 and a new unit cell, amenable for room-temperature X-ray diffraction studies. We co-crystallized hAChE in P3 1 unit cell with the reversible inhibitor 9-aminoacridine that binds at the base of the active center gorge in addition to inhibitors that span the full length of the gorge, donepezil (Aricept, E2020) and AChE specific inhibitor BW284c51. Their new low temperature P3 1 space group structures appear similar to those previously obtained in the different P3 1 21 unit cell. Successful solution of the new room temperature 3.2 Å resolution structure of BW284c51*hAChE complex from large P3 1 crystals enables us to proceed with studying room temperature structures of lower affinity complexes, such as oxime reactivators bound to hAChE, where temperature related conformational diversity could be expected in both oxime and hAChE, which could lead to better informed structure-based design under closer-to-physiological temperature conditions.


    Organizational Affiliation

    Department of Pharmacology and Toxicology, University of Utah, Salt Lake City, UT, 84112, USA.,(a)Bredesen Center, University of Tennessee, Knoxville, TN, 37996, United States.,(b)Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, 92093-0650, USA.,Neutron Scattering Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA.,(b)Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, 92093-0650, USA. Electronic address: zradic@ucsd.edu.,Division of Medicinal Chemistry & Pharmacognosy, College of Pharmacy, The Ohio State University, Columbus, OH, 43210, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Acetylcholinesterase
A, B
550Homo sapiensMutation(s): 0 
Gene Names: ACHE
EC: 3.1.1.7
Find proteins for P22303 (Homo sapiens)
Go to Gene View: ACHE
Go to UniProtKB:  P22303
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
A, B
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
EBW
Query on EBW

Download SDF File 
Download CCD File 
A, B
4-(5-{4-[DIMETHYL(PROP-2-ENYL)AMMONIO]PHENYL}-3-OXOPENTYL)-N,N-DIMETHYL-N-PROP-2-ENYLBENZENAMINIUM
C27 H38 N2 O
ZAEXMNKDGJNLTA-UHFFFAOYSA-N
 Ligand Interaction
NO3
Query on NO3

Download SDF File 
Download CCD File 
A
NITRATE ION
N O3
NHNBFGGVMKEFGY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.352 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.204 
  • Space Group: P 31
Unit Cell:
Length (Å)Angle (°)
a = 125.180α = 90.00
b = 125.180β = 90.00
c = 130.280γ = 120.00
Software Package:
Software NamePurpose
HKL-3000data reduction
HKL-3000data scaling
PHASERphasing
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of Neurological Disorders and StrokeUnited States1U01NS083451

Revision History 

  • Version 1.0: 2019-06-19
    Type: Initial release
  • Version 1.1: 2019-07-10
    Type: Data collection, Database references