2P8H

Crystal structure of human beta secretase complexed with inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.221 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Design and Synthesis of 2,3,5-Substituted Imidazolidin-4-one Inhibitors of BACE-1.

Barrow, J.C.Rittle, K.E.Ngo, P.L.Selnick, H.G.Graham, S.L.Pitzenberger, S.M.McGaughey, G.B.Colussi, D.Lai, M.T.Huang, Q.Tugusheva, K.Espeseth, A.S.Simon, A.J.Munshi, S.K.Vacca, J.P.

(2007) Chemmedchem 2: 995-999


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Beta-secretase 1
A
405Homo 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
MY9
Query on MY9

Download SDF File 
Download CCD File 
A
N-{(1S,2S)-1-BENZYL-2-HYDROXY-2-[(4S)-1,2,2-TRIMETHYL-5-OXOIMIDAZOLIDIN-4-YL]ETHYL}-N'-[(1R)-1-(4-FLUOROPHENYL)ETHYL]-5-[METHYL(METHYLSULFONYL)AMINO]ISOPHTHALAMIDE
C33 H40 F N5 O6 S
YNXGIROKYOHHJW-UFAZYNLISA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
MY9IC50: 71 nM BINDINGMOAD
MY9IC50: 71 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.221 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 104.569α = 90.00
b = 127.291β = 90.00
c = 76.085γ = 90.00
Software Package:
Software NamePurpose
CNXphasing
d*TREKdata scaling
CNXrefinement
d*TREKdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2007-03-22 
  • Released Date: 2007-08-14 
  • Deposition Author(s): Munshi, S.

Revision History 

  • Version 1.0: 2007-08-14
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance