3TPP

Crystal structure of BACE1 complexed with an inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.180
  • R-Value Work: 0.154

Literature

Macromolecules
Sequence Display for 3TPP

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 49938.00

Macromolecule Entities
Molecule Chains Length Organism Details
Beta-secretase 1 A 433 Homo sapiens EC#: 3.4.23.46 IUBMB 4.3.1.23 IUBMB
Fragment: UNP residues 43-454
Mutation: K75A, E77A
Gene Name(s): BACE1 Gene View BACE KIAA1149
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
5HA
Query on 5HA

A N-[(1S,2R)-1-BENZYL-3-(CYCLOPROPYLAMINO)- 2-HYDROXYPROPYL]-5-[METHYL(METHYLSULFONYL)AMINO]- N'-[(1R)-1-PHENYLETHYL]ISOPHTHALAMIDE
C31 H38 N4 O5 S
VPNIQGRFZCTBEZ-SPTGULJVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
URE
Query on URE

A UREA
C H4 N2 O
XSQUKJJJFZCRTK-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
5HA EC50: 43 nM (99) BindingDB
IC50: 2 - 15000 nM (99) BindingDB
Ki: 233 nM (99) BindingDB

IC50: 15 nM  BindingMOAD
IC50: 15 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.180
  • R-Value Work: 0.154
  • Space Group: C 2 2 21

Unit Cell:

Length (Å) Angle (°)
a = 104.55 α = 90.00
b = 128.20 β = 90.00
c = 76.54 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-09-08
  • Released Date: 2011-11-23
  • Deposition author(s): Xu, Y.C., Li, M.J., Greenblatt, H., Chen, T.T., Silman, I., Sussman, J.L.

Revision History

  • 2012-06-13
    Type: Database references