7ZJQ

Human TEAD3 in complex with 1-Cyclopentyl-1H-pyrazolo[3,4-b]pyridine-5-carboxylic acid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.257 
  • R-Value Observed: 0.258 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Optimization of TEAD P-Site Binding Fragment Hit into In Vivo Active Lead MSC-4106 .

Heinrich, T.Peterson, C.Schneider, R.Garg, S.Schwarz, D.Gunera, J.Seshire, A.Kotzner, L.Schlesiger, S.Musil, D.Schilke, H.Doerfel, B.Diehl, P.Bopple, P.Lemos, A.R.Sousa, P.M.F.Freire, F.Bandeiras, T.M.Carswell, E.Pearson, N.Sirohi, S.Hooker, M.Trivier, E.Broome, R.Balsiger, A.Crowden, A.Dillon, C.Wienke, D.

(2022) J Med Chem 65: 9206-9229

  • DOI: https://doi.org/10.1021/acs.jmedchem.2c00403
  • Primary Citation of Related Structures:  
    7ZJP, 7ZJQ

  • PubMed Abstract: 

    The dysregulated Hippo pathway and, consequently, hyperactivity of the transcriptional YAP/TAZ-TEAD complexes is associated with diseases such as cancer. Prevention of YAP/TAZ-TEAD triggered gene transcription is an attractive strategy for therapeutic intervention. The deeply buried and conserved lipidation pocket (P-site) of the TEAD transcription factors is druggable. The discovery and optimization of a P-site binding fragment ( 1 ) are described. Utilizing structure-based design, enhancement in target potency was engineered into the hit, capitalizing on the established X-ray structure of TEAD1. The efforts culminated in the optimized in vivo tool MSC-4106 , which exhibited desirable potency, mouse pharmacokinetic properties, and in vivo efficacy. In close correlation to compound exposure, the time- and dose-dependent downregulation of a proximal biomarker could be shown.


  • Organizational Affiliation

    Merck Healthcare KGaA, Frankfurter Str. 250, 64293 Darmstadt, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Transcriptional enhancer factor TEF-5220Homo sapiensMutation(s): 0 
Gene Names: TEAD3TEAD5TEF5
UniProt & NIH Common Fund Data Resources
Find proteins for Q99594 (Homo sapiens)
Explore Q99594 
Go to UniProtKB:  Q99594
PHAROS:  Q99594
GTEx:  ENSG00000007866 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ99594
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Transcriptional enhancer factor TEF-5
B, C, D
220Homo sapiensMutation(s): 0 
Gene Names: TEAD3TEAD5TEF5
UniProt & NIH Common Fund Data Resources
Find proteins for Q99594 (Homo sapiens)
Explore Q99594 
Go to UniProtKB:  Q99594
PHAROS:  Q99594
GTEx:  ENSG00000007866 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ99594
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.257 
  • R-Value Observed: 0.258 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 65.47α = 90
b = 121.66β = 90
c = 154.33γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
autoPROCdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2022-07-13
    Type: Initial release
  • Version 1.1: 2022-07-27
    Changes: Database references
  • Version 1.2: 2024-01-31
    Changes: Data collection, Refinement description