8QTJ

Crystal structure of Cbl-b in complex with an allosteric inhibitor (compound 30)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.52 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.204 
  • R-Value Observed: 0.206 

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Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Discovery, Optimization, and Biological Evaluation of Arylpyridones as Cbl-b Inhibitors.

Mfuh, A.M.Boerth, J.A.Bommakanti, G.Chan, C.Chinn, A.J.Code, E.Fricke, P.J.Giblin, K.A.Gohlke, A.Hansel, C.Hariparsad, N.Hughes, S.J.Jin, M.Kantae, V.Kavanagh, S.L.Lamb, M.L.Lane, J.Moore, R.Puri, T.Quinn, T.R.Reddy, I.Robb, G.R.Robbins, K.J.Gancedo Rodrigo, M.Schimpl, M.Singh, B.Singh, M.Tang, H.Thomson, C.Walsh, J.J.Ware, J.Watson, I.D.G.Ye, M.W.Wrigley, G.L.Zhang, A.X.Zhang, Y.Grimster, N.P.

(2024) J Med Chem 67: 1500-1512

  • DOI: https://doi.org/10.1021/acs.jmedchem.3c02083
  • Primary Citation of Related Structures:  
    8QTG, 8QTH, 8QTJ, 8QTK

  • PubMed Abstract: 

    Casitas B-lymphoma proto-oncogene-b (Cbl-b), a member of the Cbl family of RING finger E3 ubiquitin ligases, has been demonstrated to play a central role in regulating effector T-cell function. Multiple studies using gene-targeting approaches have provided direct evidence that Cbl-b negatively regulates T, B, and NK cell activation via a ubiquitin-mediated protein modulation. Thus, inhibition of Cbl-b ligase activity can lead to immune activation and has therapeutic potential in immuno-oncology. Herein, we describe the discovery and optimization of an arylpyridone series as Cbl-b inhibitors by structure-based drug discovery to afford compound 31 . This compound binds to Cbl-b with an IC 50 value of 30 nM and induces IL-2 production in T-cells with an EC 50 value of 230 nM. Compound 31 also shows robust intracellular target engagement demonstrated through inhibition of Cbl-b autoubiquitination, inhibition of ubiquitin transfer to ZAP70, and the cellular modulation of phosphorylation of a downstream signal within the TCR axis.


  • Organizational Affiliation

    Oncology R&D, AstraZeneca, Waltham, Massachusetts 02451, United States.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
E3 ubiquitin-protein ligase CBL-B394Homo sapiensMutation(s): 0 
Gene Names: CBLB
UniProt & NIH Common Fund Data Resources
Find proteins for Q13191 (Homo sapiens)
Explore Q13191 
Go to UniProtKB:  Q13191
PHAROS:  Q13191
GTEx:  ENSG00000114423 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ13191
Sequence Annotations
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  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.52 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.204 
  • R-Value Observed: 0.206 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 57.127α = 90
b = 75.159β = 90
c = 98.033γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
STARANISOdata scaling
XDSdata reduction
AMoREphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data

  • Released Date: 2024-01-10 
  • Deposition Author(s): Schimpl, M.

Funding OrganizationLocationGrant Number
Not fundedUnited Kingdom--

Revision History  (Full details and data files)

  • Version 1.0: 2024-01-10
    Type: Initial release
  • Version 1.1: 2024-01-24
    Changes: Database references
  • Version 1.2: 2024-02-07
    Changes: Database references