4FGX

Crystal structure of bace1 with novel inhibitor

Structural Biology Knowledgebase: 4FGX SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.59 Å
  • R-Value Free: 0.181
  • R-Value Work: 0.167

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4FGX

Classification: Hydrolase / Hydrolase Inhibitor

Total Structure Weight: 49545.82

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
Mutation: K123A, E125A
Gene Name(s): BACE1 Gene View BACE KIAA1149
Inhibitor (2R,5S,8S,12S,13S,16S,19S,22S)-16-(3-amino-3-oxopropyl)-2,13-dibenzyl-12,22-dihydroxy-8-isobutyl-19-isopropyl-3,5,17-trimethyl-4,7,10,15,18,21-hexaoxo-3,6,9,14,17,20-hexaazatricosan-1-oic acid B 7 synthetic

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

A DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

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

A UREA
C H4 N2 O
XSQUKJJJFZCRTK-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 4 Unique
ID Chains Type Formula 2D Diagram Parent
2OP
Query on 2OP
B NON-POLYMER C3 H6 O3 --
GNC
Query on GNC
B L-PEPTIDE LINKING C6 H12 N2 O3 GLN
PSA
Query on PSA
B PEPTIDE-LIKE C11 H15 N O3 PHE
ZAE
Query on ZAE
B D-PEPTIDE LINKING C10 H13 N O2 --

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.59 Å
  • R-Value Free: 0.181
  • R-Value Work: 0.167
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 104.71 α = 90.00
b = 128.73 β = 90.00
c = 76.16 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-06-05
  • Released Date: 2013-01-16
  • Deposition author(s): Chen, T.T., Chen, W.Y., Li, L., Xu, Y.C.

Revision History

No revisions since initial release