3RTM

Structure of Bace-1 (Beta-Secretase) in Complex with 3-(2-Aminoquinolin-3-yl)-N-cyclohexyl-N-methylpropanamide

Structural Biology Knowledgebase: 3RTM SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.76 Å
  • R-Value Free: 0.288
  • R-Value Work: 0.221

Literature

Macromolecules
Sequence Display for 3RTM

Classification: Hydrolase / Hydrolase Inhibitor

Total Structure Weight: 46699.25

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: UNP residues 43-453
Mutation: R-5K, R-4K
Gene Name(s): BACE1 Gene View BACE KIAA1149
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A 3-(2-aminoquinolin-3-yl)-N-cyclohexyl-N-methylpropanamide
C19 H25 N3 O
GRFOHUBBUMAJMM-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IOD
Query on IOD

A IODIDE ION
I
XMBWDFGMSWQBCA-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
RTM Kd: 38400 nM (99) BindingDB

N/A in BindingMoad
Kd: 38400 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.76 Å
  • R-Value Free: 0.288
  • R-Value Work: 0.221
  • Space Group: P 61 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 101.88 α = 90.00
b = 101.88 β = 90.00
c = 169.16 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-05-03
  • Released Date: 2011-08-31
  • Deposition author(s): Sickmier, E.A.

Revision History

No revisions since initial release