3SKG

Crystal structure of beta-site app-cleaving enzyme 1 (BACE-WT) complex with (2S)-2-((3R)-3-acetamido-3-isobutyl-2-oxo-1-pyrrolidinyl)-N-((1S,2R)-1-(3,5-difluorobenzyl)-2-hydroxy-2-(1,2,3,4-tetrahydro-3-isoquinolinyl)ethyl)-4-phenylbutanamide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.88 Å
  • R-Value Free: 0.348 
  • R-Value Work: 0.255 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Synthesis and in vivo evaluation of cyclic diaminopropane BACE-1 inhibitors.

Thompson, L.A.Shi, J.Decicco, C.P.Tebben, A.J.Olson, R.E.Boy, K.M.Guernon, J.M.Good, A.C.Liauw, A.Zheng, C.Copeland, R.A.Combs, A.P.Trainor, G.L.Camac, D.M.Muckelbauer, J.K.Lentz, K.A.Grace, J.E.Burton, C.R.Toyn, J.H.Barten, D.M.Marcinkeviciene, J.Meredith, J.E.Albright, C.F.Macor, J.E.

(2011) Bioorg.Med.Chem.Lett. 21: 6909-6915

  • DOI: 10.1016/j.bmcl.2011.06.116
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The synthesis, evaluation, and structure-activity relationships of a set of related constrained diaminopropane inhibitors of BACE-1 are described. The full in vivo profile of an optimized inhibitor in both normal and P-gp deficient mice is compared w ...

    The synthesis, evaluation, and structure-activity relationships of a set of related constrained diaminopropane inhibitors of BACE-1 are described. The full in vivo profile of an optimized inhibitor in both normal and P-gp deficient mice is compared with data generated in normal rats.


    Organizational Affiliation

    Bristol-Myers Squibb Research and Development, 5 Research Parkway, Wallingford, CT 06492, USA. lorin.thompson@bms.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Beta-secretase 1
A, B, D, E
455Homo 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
PB8
Query on PB8

Download SDF File 
Download CCD File 
A, B, D, E
(2S)-2-[(3R)-3-(acetylamino)-3-(2-methylpropyl)-2-oxopyrrolidin-1-yl]-N-{(1R,2S)-3-(3,5-difluorophenyl)-1-hydroxy-1-[(3R)-1,2,3,4-tetrahydroisoquinolin-3-yl]propan-2-yl}-4-phenylbutanamide
C38 H46 F2 N4 O4
JJJDOYFRIVNWHV-WUCUQKTKSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
PB8IC50: 8.6 - 9.5 nM (100) BINDINGDB
PB8IC50: 8 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.88 Å
  • R-Value Free: 0.348 
  • R-Value Work: 0.255 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 86.240α = 90.00
b = 130.451β = 96.65
c = 86.872γ = 90.00
Software Package:
Software NamePurpose
CrystalCleardata collection
REFMACrefinement
SCALEPACKdata scaling
CNSphasing
PDB_EXTRACTdata extraction
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2011-06-22 
  • Released Date: 2011-09-07 
  • Deposition Author(s): Muckelbauer, J.K.

Revision History 

  • Version 1.0: 2011-09-07
    Type: Initial release
  • Version 1.1: 2011-10-19
    Type: Database references
  • Version 1.2: 2011-11-02
    Type: Database references
  • Version 1.3: 2012-12-05
    Type: Database references