4B05

Preclinical characterization of AZD3839, a novel clinical candidate BACE1 inhibitor for the treatment of Alzheimer Disease

Structural Biology Knowledgebase: 4B05 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.215
  • R-Value Work: 0.178

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4B05

Classification: HYDROLASE

Total Structure Weight: 46572.53

Macromolecule Entities
Molecule Chains Length Organism Details
BETA-SECRETASE 1 A 411 Homo sapiens EC#: 3.4.23.46 IUBMB
Fragment: RESIDUES 43-453
Mutation: R497K, R498K
Gene Name(s): BACE1 Gene View BACE KIAA1149

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
32D
Query on 32D

A (1S)-1-[2-(difluoromethyl)pyridin-4-yl]-4- fluoro-1-(3-pyrimidin-5-ylphenyl)-1H-isoindol- 3-amine
C24 H16 F3 N5
MRXBCEQZNKUUIP-DEOSSOPVSA-N
Ligand Explorer
 
JSmol
ACT
Query on ACT

A ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer
 
JSmol
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
32D IC50: 16.7 - 51 nM (97 - 99) BindingDB

Ki: 26 nM  BindingMOAD
Ki: 26.1 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.215
  • R-Value Work: 0.178
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 47.53 α = 90.00
b = 76.53 β = 90.00
c = 104.16 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-06-28
  • Released Date: 2012-10-17
  • Deposition author(s): Jeppsson, F., Eketjall, S., Janson, J., Karlstrom, S., Gustavsson, S., Olsson, L.L., Radesater, A.C., Ploeger, B., Cebers, G., Kolmodin, K., Swahn, B.M., Von Berg, S., Bueters, T., Falting, J.

Revision History

  • 2012-12-19
    Type: Citation | Details: JRNL
  • 2012-12-19
    Type: Refinement description | Details: REMARK 3
  • 2012-12-12
    Type: Citation | Details: JRNL
  • 2012-10-24
    Type: Citation | Details: JRNL