4IQK

Crystal structure of cpd 16 bound to Keap1 Kelch domain


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.97 Å
  • R-Value Free: 0.179 
  • R-Value Work: 0.153 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Small molecules inhibit the interaction of Nrf2 and the Keap1 Kelch domain through a non-covalent mechanism.

Marcotte, D.Zeng, W.Hus, J.C.McKenzie, A.Hession, C.Jin, P.Bergeron, C.Lugovskoy, A.Enyedy, I.Cuervo, H.Wang, D.Atmanene, C.Roecklin, D.Vecchi, M.Vivat, V.Kraemer, J.Winkler, D.Hong, V.Chao, J.Lukashev, M.Silvian, L.

(2013) Bioorg.Med.Chem. 21: 4011-4019

  • DOI: 10.1016/j.bmc.2013.04.019
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Keap1 binds to the Nrf2 transcription factor to promote its degradation, resulting in the loss of gene products that protect against oxidative stress. While cell-active small molecules have been identified that modify cysteines in Keap1 and effect th ...

    Keap1 binds to the Nrf2 transcription factor to promote its degradation, resulting in the loss of gene products that protect against oxidative stress. While cell-active small molecules have been identified that modify cysteines in Keap1 and effect the Nrf2 dependent pathway, few act through a non-covalent mechanism. We have identified and characterized several small molecule compounds that specifically bind to the Keap1 Kelch-DC domain as measured by NMR, native mass spectrometry and X-ray crystallography. One compound upregulates Nrf2 response genes measured by a luciferase cell reporter assay. The non-covalent inhibition strategy presents a reasonable course of action to avoid toxic side-effects due to non-specific cysteine modification.


    Organizational Affiliation

    Biogen Idec, Drug Discovery, 12 Cambridge Center, Cambridge, MA 02142, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Kelch-like ECH-associated protein 1
A
299Homo sapiensMutation(s): 2 
Gene Names: KEAP1 (INRF2, KIAA0132, KLHL19)
Find proteins for Q14145 (Homo sapiens)
Go to Gene View: KEAP1
Go to UniProtKB:  Q14145
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
IQK
Query on IQK

Download SDF File 
Download CCD File 
A
N,N'-naphthalene-1,4-diylbis(4-methoxybenzenesulfonamide)
C24 H22 N2 O6 S2
XLLVCULLOGKYOO-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
IQKIC50: 1700 nM (98) BINDINGDB
IQKKd: 1690 nM (98) BINDINGDB
IQKEC50: 1460 nM (98) BINDINGDB
IQKIC50: 2700 nM BINDINGMOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.97 Å
  • R-Value Free: 0.179 
  • R-Value Work: 0.153 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 125.856α = 90.00
b = 75.638β = 106.09
c = 48.341γ = 90.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
REFMACrefinement
SCALAdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-05-15
    Type: Initial release
  • Version 1.1: 2013-05-22
    Type: Database references
  • Version 1.2: 2013-07-03
    Type: Database references