NQO1 bound to RBS-10

Experimental Data Snapshot

  • Resolution: 3.80 Å
  • R-Value Free: 0.362 
  • R-Value Work: 0.261 

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Ligand Structure Quality Assessment 

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Discovery and Mechanistic Elucidation of NQO1-Bioactivatable Small Molecules That Overcome Resistance to Degraders.

Barbosa, B.M.G.Sfyaki, A.Rafael, S.Jose-Duran, F.Pous, J.Sanchez-Zarzalejo, C.Perez-Lopez, C.Vilanova, M.Cigler, M.Gay, M.Vilaseca, M.Winter, G.E.Riera, A.Mayor-Ruiz, C.

(2024) Angew Chem Int Ed Engl 63: e202316730-e202316730

  • DOI: https://doi.org/10.1002/anie.202316730
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Degraders hold the promise to efficiently inactivate previously intractable disease-relevant targets. Unlike traditional inhibitors, degraders act substoichiometrically and rely on the hijacked proteolysis machinery, which can also act as an entry point for resistance. To fully harness the potential of targeted protein degradation, it is crucial to comprehend resistance mechanisms and formulate effective strategies to overcome them. We conducted a chemical screening to identify synthetic lethal vulnerabilities of cancer cells that exhibit widespread resistance to degraders. Comparative profiling followed by tailored optimization delivered the small molecule RBS-10, which shows preferential cytotoxicity against cells pan-resistant to degraders. Multiomics deconvolution of the mechanism of action revealed that RBS-10 acts as a prodrug bioactivated by the oxidoreductase enzyme NQO1, which is highly overexpressed in our resistance models. Collectively, our work informs on NQO1 as an actionable vulnerability to overcome resistance to degraders and as a biomarker to selectively exploit bioactivatable prodrugs in cancer.

  • Organizational Affiliation

    Institute for Research in Biomedicine (IRB Barcelona), the, Barcelona Institute of Science and Technology (BIST), 08028, Barcelona, Spain.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
NAD(P)H dehydrogenase [quinone] 1
A, B, C, D
273Homo sapiensMutation(s): 0 
Gene Names: NQO1DIA4NMOR1
UniProt & NIH Common Fund Data Resources
Find proteins for P15559 (Homo sapiens)
Explore P15559 
Go to UniProtKB:  P15559
PHAROS:  P15559
GTEx:  ENSG00000181019 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP15559
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 3.80 Å
  • R-Value Free: 0.362 
  • R-Value Work: 0.261 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 70.748α = 90
b = 178.369β = 90
c = 210.479γ = 90
Software Package:
Software NamePurpose
MxCuBEdata collection
iMOSFLMdata reduction
pointlessdata scaling
SCALAdata scaling
Cootmodel building

Structure Validation

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Ligand Structure Quality Assessment 

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
European Research Council (ERC)European Union101040046
Spanish Ministry of Science, Innovation, and UniversitiesSpainPID2020-120110RA-I00

Revision History  (Full details and data files)

  • Version 1.0: 2024-01-10
    Type: Initial release
  • Version 1.1: 2024-03-20
    Changes: Database references