1W51

BACE (BETA SECRETASE) IN COMPLEX WITH A NANOMOLAR NON-PEPTIDIC INHIBITOR

Structural Biology Knowledgebase: 1W51 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.55 Å
  • R-Value Free: 0.288
  • R-Value Work: 0.216

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1W51

Classification: HYDROLASE / INHIBITOR

Total Structure Weight: 46862.24

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: ACTIVE PROTEASE DOMAIN, RESIDUES 43-453
Gene Name(s): BACE1 Gene View BACE KIAA1149

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
L01
Query on L01

A 3-[({(1S,2R)-1-BENZYL-2-HYDROXY-3-[(3-METHOXYBENZYL)AMINO]PROPYL}AMINO)(HYDROXY)METHYL]- N,N-DIPROPYLBENZAMIDE
HYDROXYETHYLAMINE BACE INHIBITOR (Synonym)
C32 H41 N3 O4
WPRACYICKOKGTO-XZWHSSHBSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IOD
Query on IOD

A IODIDE ION
I
XMBWDFGMSWQBCA-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
L01 IC50: 500 nM (99) BindingDB

N/A in BindingMoad
IC50: 500 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.55 Å
  • R-Value Free: 0.288
  • R-Value Work: 0.216
  • Space Group: P 61 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 102.35 α = 90.00
b = 102.35 β = 90.00
c = 168.00 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-08-04
  • Released Date: 2004-09-23
  • Deposition author(s): Patel, S., Vuillard, L., Cleasby, A., Murray, C.W., Yon, J.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4