2PH6

Crystal Structure of Human Beta Secretase Complexed with inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.194 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Design, synthesis, and SAR of macrocyclic tertiary carbinamine BACE-1 inhibitors.

Lindsley, S.R.Moore, K.P.Rajapakse, H.A.Selnick, H.G.Young, M.B.Zhu, H.Munshi, S.Kuo, L.McGaughey, G.B.Colussi, D.Crouthamel, M.C.Lai, M.T.Pietrak, B.Price, E.A.Sankaranarayanan, S.Simon, A.J.Seabrook, G.R.Hazuda, D.J.Pudvah, N.T.Hochman, J.H.Graham, S.L.Vacca, J.P.Nantermet, P.G.

(2007) Bioorg.Med.Chem.Lett. 17: 4057-4061

  • DOI: 10.1016/j.bmcl.2007.04.072

  • PubMed Abstract: 
  • This Letter describes the design and synthesis of tertiary carbinamine macrocyclic inhibitors of the beta-secretase (BACE-1) enzyme. These macrocyclic inhibitors, some of which incorporate novel P2 substituents, display a 2- to 100-fold increase in p ...

    This Letter describes the design and synthesis of tertiary carbinamine macrocyclic inhibitors of the beta-secretase (BACE-1) enzyme. These macrocyclic inhibitors, some of which incorporate novel P2 substituents, display a 2- to 100-fold increase in potency relative to the previously described acyclic analogs while affording greater stability.


    Organizational Affiliation

    Department of Medicinal Chemistry, Merck Research Laboratories, PO Box 4, West Point, PA 19486, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Beta-secretase 1
A
405Homo sapiensMutation(s): 2 
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 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
712
Query on 712

Download SDF File 
Download CCD File 
A
3-({[(1R)-1-(4-FLUOROPHENYL)ETHYL]AMINO}CARBONYL)-5-[METHYL(METHYLSULFONYL)AMINO]BENZYL ALPHA-METHYL-D-PHENYLALANINATE
C28 H32 F N3 O5 S
PTQRJCCBUDSHTQ-WHLCRQNOSA-N
 Ligand Interaction
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
712IC50: 19 - 163 nM (99) BINDINGDB
712IC50: 27 nM BINDINGMOAD
712IC50: 27 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.194 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 103.795α = 90.00
b = 127.130β = 90.00
c = 76.205γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data scaling
REFMACrefinement
HKL-2000data reduction
REFMACphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2007-04-10 
  • Released Date: 2007-06-05 
  • Deposition Author(s): Munshi, S.

Revision History 

  • Version 1.0: 2007-06-05
    Type: Initial release
  • Version 1.1: 2007-10-10
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance