4L7D

Structure of keap1 kelch domain with (1S,2R)-2-{[(1S)-5-methyl-1-[(1-oxo-1,3-dihydro-2H-isoindol-2-yl)methyl]-3,4-dihydroisoquinolin-2(1H)-yl]carbonyl}cyclohexanecarboxylic acid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.252 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Binding Mode and Structure-Activity Relationships around Direct Inhibitors of the Nrf2-Keap1 Complex.

Jnoff, E.Albrecht, C.Barker, J.J.Barker, O.Beaumont, E.Bromidge, S.Brookfield, F.Brooks, M.Bubert, C.Ceska, T.Corden, V.Dawson, G.Duclos, S.Fryatt, T.Genicot, C.Jigorel, E.Kwong, J.Maghames, R.Mushi, I.Pike, R.Sands, Z.A.Smith, M.A.Stimson, C.C.Courade, J.P.

(2014) Chemmedchem 9: 699-705

  • DOI: 10.1002/cmdc.201300525
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • An X-ray crystal structure of Kelch-like ECH-associated protein (Keap1) co-crystallised with (1S,2R)-2-[(1S)-1-[(1,3-dioxo-2,3-dihydro-1H-isoindol-2-yl)methyl]-1,2,3,4-tetrahydroisoquinolin-2-carbonyl]cyclohexane-1-carboxylic acid (compound (S,R,S)-1 ...

    An X-ray crystal structure of Kelch-like ECH-associated protein (Keap1) co-crystallised with (1S,2R)-2-[(1S)-1-[(1,3-dioxo-2,3-dihydro-1H-isoindol-2-yl)methyl]-1,2,3,4-tetrahydroisoquinolin-2-carbonyl]cyclohexane-1-carboxylic acid (compound (S,R,S)-1 a) was obtained. This X-ray crystal structure provides breakthrough experimental evidence for the true binding mode of the hit compound (S,R,S)-1 a, as the ligand orientation was found to differ from that of the initial docking model, which was available at the start of the project. Crystallographic elucidation of this binding mode helped to focus and drive the drug design process more effectively and efficiently.


    Organizational Affiliation

    UCB Pharma, UCB NewMedicines, Chemin du Foriest, 1420 Braine-l'Alleud (Belgium). eric.jnoff@ucb.com.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Kelch-like ECH-associated protein 1
A, B, C
300Homo sapiensMutation(s): 1 
Gene Names: KEAP1 (INRF2, KIAA0132, KLHL19)
Find proteins for Q14145 (Homo sapiens)
Go to Gene View: KEAP1
Go to UniProtKB:  Q14145
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ACT
Query on ACT

Download SDF File 
Download CCD File 
A, B, C
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
1VX
Query on 1VX

Download SDF File 
Download CCD File 
A, B, C
(1S,2R)-2-{[(1S)-5-methyl-1-[(1-oxo-1,3-dihydro-2H-isoindol-2-yl)methyl]-3,4-dihydroisoquinolin-2(1H)-yl]carbonyl}cyclohexanecarboxylic acid
C27 H30 N2 O4
YTUXAQFRBNUADX-TZRRMPRUSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
1VXIC50: 750 nM BINDINGMOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.252 
  • Space Group: P 21 2 21
Unit Cell:
Length (Å)Angle (°)
a = 75.920α = 90.00
b = 126.000β = 90.00
c = 130.300γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
GDAdata collection
XDSdata reduction
REFMACrefinement
XDSdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-02-19
    Type: Initial release
  • Version 1.1: 2014-04-23
    Type: Database references