9ETW | pdb_00009etw

BTB domain of KLHL26


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.51 Å
  • R-Value Free: 
    0.218 (Depositor), 0.220 (DCC) 
  • R-Value Work: 
    0.188 (Depositor), 0.187 (DCC) 
  • R-Value Observed: 
    0.190 (Depositor) 

Starting Model: other
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wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Covalent Inhibitors of KEAP1 with Exquisite Selectivity.

Fejes, I.Markacz, P.Tatai, J.Rudas, M.Dunkel, P.Gyuris, M.Nyerges, M.Provost, N.Duvivier, V.Delerive, P.Martiny, V.Bristiel, A.Vidal, B.Richardson, W.Rothweiler, E.M.Tranberg-Jensen, J.Manning, C.E.Sweeney, M.N.Chalk, R.Huber, K.V.M.Bullock, A.N.Herner, A.Seedorf, K.Vinson, C.Weber, C.Kotschy, A.

(2024) J Med Chem 67: 21208-21222

  • DOI: https://doi.org/10.1021/acs.jmedchem.4c02019
  • Primary Citation of Related Structures:  
    9ETW, 9ETX, 9ETY

  • PubMed Abstract: 

    The NRF2-KEAP1 interaction is central for cytoprotection against stresses, giving it high clinical significance. Covalent modification of KEAP1 is an efficient approach, but the covalent inhibitors used in the clinic carry undesired side effects originating in their moderate selectivity. Starting with a phenotypic screen, we identified a new covalent inhibitor chemotype that was optimized to deliver a series of potent and highly selective KEAP1 binders. While the developed compounds showed both cellular and in vivo activity, upregulating antioxidant response element-dependent target genes, they showed no genotoxicity in vitro. The lead compound exhibited broad selectivity in activity-based protein profiling and showed no significant interaction with a panel of commonly studied receptors nor with a broad panel of kinases. The nature of its interaction with KEAP1 and the origin of its selectivity were revealed by X-ray crystallography.


  • Organizational Affiliation
    • Servier Research Institute of Medicinal Chemistry, Zahony u. 7., H-1031 Budapest, Hungary.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Kelch-like protein 26
A, B
130Homo sapiensMutation(s): 0 
Gene Names: KLHL26
UniProt & NIH Common Fund Data Resources
Find proteins for Q53HC5 (Homo sapiens)
Explore Q53HC5 
Go to UniProtKB:  Q53HC5
PHAROS:  Q53HC5
GTEx:  ENSG00000167487 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ53HC5
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
EDO
Query on EDO

Download Ideal Coordinates CCD File 
C [auth B]1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.51 Å
  • R-Value Free:  0.218 (Depositor), 0.220 (DCC) 
  • R-Value Work:  0.188 (Depositor), 0.187 (DCC) 
  • R-Value Observed: 0.190 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 28.74α = 90
b = 78.186β = 90
c = 95.571γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
DIALSdata reduction
DIALSdata scaling
MrBUMPphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Innovative Medicines InitiativeSwitzerland875510

Revision History  (Full details and data files)

  • Version 1.0: 2024-12-11
    Type: Initial release
  • Version 1.1: 2024-12-25
    Changes: Database references