4B00

Design and Synthesis of BACE1 Inhibitors with In Vivo Brain Reduction of beta-Amyloid Peptides (COMPOUND (R)-41)

Structural Biology Knowledgebase: 4B00 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.83 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.173

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4B00

Classification: HYDROLASE

Total Structure Weight: 46535.66

Macromolecule Entities
Molecule Chains Length Organism Details
BETA-SECRETASE 1 A 411 Homo sapiens EC#: 3.4.23.46 IUBMB 4.3.1.23 IUBMB
Fragment: RESIDUES 43-453
Mutation: R497K, R498K
Gene Name(s): BACE1 Gene View BACE KIAA1149
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
I6X
Query on I6X

A 5-{(1R)-3-amino-4-fluoro-1-[3-(5-prop-1-yn- 1-ylpyridin-3-yl)phenyl]-1H-isoindol-1-yl}- 1-ethyl-3-methylpyridin-2(1H)-one
C30 H25 F N4 O
TUGLMYZSOPKJOA-PMERELPUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACT
Query on ACT

A ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
I6X IC50: 0.16 - 2.6 nM (97 - 99) BindingDB

IC50: 2.44 nM  BindingMOAD
IC50: 2.44 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.83 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.173
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 47.96 α = 90.00
b = 75.91 β = 90.00
c = 104.65 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-06-27
  • Released Date: 2012-10-17
  • Deposition author(s): Swahn, B.M., Kolmodin, K., Karlstrom, S., Von Berg, S., Soderman, P., Holenz, J., Berg, S., Lindstrom, J., Sundstrom, M., Turek, D., Kihlstrom, J., Slivo, C., Andersson, L., Pyring, D., Ohberg, L., Kers, A., Bogar, K., Bergh, M., Olsson, L.L., Janson, J., Eketjall, S., Georgievska, B., Jeppsson, F., Falting, J.

Revision History

  • 2012-11-21
    Type: Citation | Details: JRNL