2ZE1

X-ray structure of Bace-1 in complex with compound 6g


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.290 
  • R-Value Work: 0.248 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Acylguanidine inhibitors of beta-secretase: optimization of the pyrrole ring substituents extending into the S1 and S3 substrate binding pockets.

Cole, D.C.Stock, J.R.Chopra, R.Cowling, R.Ellingboe, J.W.Fan, K.Y.Harrison, B.L.Hu, Y.Jacobsen, S.Jennings, L.D.Jin, G.Lohse, P.A.Malamas, M.S.Manas, E.S.Moore, W.J.O'Donnell, M.M.Olland, A.M.Robichaud, A.J.Svenson, K.Wu, J.Wagner, E.Bard, J.

(2008) Bioorg.Med.Chem.Lett. 18: 1063-1066

  • DOI: 10.1016/j.bmcl.2007.12.010
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Proteolytic cleavage of amyloid precursor protein by beta-secretase (BACE-1) and gamma-secretase leads to formation of beta-amyloid (A beta) a key component of amyloid plaques, which are considered the hallmark of Alzheimer's disease. Small molecule ...

    Proteolytic cleavage of amyloid precursor protein by beta-secretase (BACE-1) and gamma-secretase leads to formation of beta-amyloid (A beta) a key component of amyloid plaques, which are considered the hallmark of Alzheimer's disease. Small molecule inhibitors of BACE-1 may reduce levels of A beta and thus have therapeutic potential for treating Alzheimer's disease. We recently reported the identification of a novel small molecule BACE-1 inhibitor N-[2-(2,5-diphenyl-pyrrol-1-yl)-acetyl]guanidine (3.a.1). We report here the initial hit-to-lead optimization of this hit and the SAR around the aryl groups occupying the S(1) and S(2') pockets leading to submicromolar BACE-1 inhibitors.


    Organizational Affiliation

    Chemical & Screening Sciences, Wyeth Research, 401 N. Middletown Road, Pearl River, NY 10965, USA. coledc@wyeth.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Beta-secretase 1
A
415Homo sapiensMutation(s): 0 
Gene Names: BACE1 (BACE, KIAA1149)
EC: 3.4.23.46
Find proteins for P56817 (Homo sapiens)
Go to Gene View: BACE1
Go to UniProtKB:  P56817
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
411
Query on 411

Download SDF File 
Download CCD File 
A
3-bromo-N-[4-[1-(2-carbamimidamido-2-oxo-ethyl)-5-phenyl-pyrrol-2-yl]phenyl]benzamide
C26 H22 Br N5 O2
XWWAMKGNSKOVNS-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
411IC50: 600 - 5600 nM (100) BINDINGDB
411IC50: 600 nM BINDINGMOAD
411IC50: 600 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.290 
  • R-Value Work: 0.248 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 73.026α = 90.00
b = 104.321β = 94.57
c = 50.465γ = 90.00
Software Package:
Software NamePurpose
PROTEUM PLUSdata collection
HKL-2000data reduction
AMoREphasing
REFMACrefinement
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2007-12-05 
  • Released Date: 2008-12-09 
  • Deposition Author(s): Chopra, R., Olland, A.

Revision History 

  • Version 1.0: 2008-12-09
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance