9S64 | pdb_00009s64

Human TEAD1 in complex with 2-(4-chloro-3-{3-methyl-5-[4-(trifluoromethyl)phenoxy]phenyl}-1H-pyrrolo[3,2-c]pyridin-1-yl)ethan-1-ol


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 
    0.255 (Depositor), 0.245 (DCC) 
  • R-Value Work: 
    0.215 (Depositor), 0.207 (DCC) 
  • R-Value Observed: 
    0.217 (Depositor) 

Starting Model: experimental
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Ligand Structure Quality Assessment 


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Literature

Phenotypic Hit Identification and Optimization of Novel Pan-TEAD and Subtype-Selective Inhibitors.

Heinrich, T.Gambardella, A.Schwarz, D.Petersson, C.Gunera, J.Garg, S.Schneider, R.Keil, M.Grimmeisen, L.Unzue Lopez, A.Schilke, H.Weitzel, T.Kolb, C.Diehl, P.Doerfel, B.Anlauf, U.Reither, V.Rettig, C.Opelt, B.Delp, A.Wildner, N.Musil, D.Friedrich, E.Burgdorf, L.Fuchss, T.Albers, L.Sousa, P.M.F.Freire, F.M Bandeiras, T.Wienke, D.

(2025) J Med Chem 68: 24603-24623

  • DOI: https://doi.org/10.1021/acs.jmedchem.5c02602
  • Primary Citation of Related Structures:  
    9S64

  • PubMed Abstract: 

    Aiming to identify novel inhibitors of YAP-TEAD-dependent transcription, we conducted a TEAD-reporter-based cellular screen, which yielded a 5-azaindole hit that significantly stabilized TEAD subtypes 2 and 4 in a thermal shift assay. During optimization, derivatives with diverse TEAD selectivity profiles were obtained, including pan-TEAD and TEAD3-sparing inhibitors. Atropisomers with stabilized binding conformations surprisingly resulted in TEAD2 selective inhibitors. Cellular potency in reporter and viability assays was enhanced through targeted structural modifications. The physicochemical and pharmacokinetic properties were improved by the introduction of heteroatoms and the reduction of aromaticity. Structure-based considerations inspired the generation of a pyrrolo-pyridinone scaffold with further optimized properties. In lung cancer xenograft studies, representatives from both substance classes demonstrated monotherapeutic antitumor activity. For one selected example, the combination effect with the KRAS G12C inhibitor sotorasib was demonstrated in vivo.


  • 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-1
A, B, C, D
220Homo sapiensMutation(s): 0 
Gene Names: TEAD1TCF13TEF1
UniProt & NIH Common Fund Data Resources
Find proteins for P28347 (Homo sapiens)
Explore P28347 
Go to UniProtKB:  P28347
PHAROS:  P28347
GTEx:  ENSG00000187079 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP28347
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
A1JLZ (Subject of Investigation/LOI)
Query on A1JLZ

Download Ideal Coordinates CCD File 
I [auth C],
J [auth D]
2-[4-chloranyl-3-[3-methyl-5-[4-(trifluoromethyl)phenoxy]phenyl]pyrrolo[3,2-c]pyridin-1-yl]ethanol
C23 H18 Cl F3 N2 O2
ZSCUPUNDYXWNOA-UHFFFAOYSA-N
MYR
Query on MYR

Download Ideal Coordinates CCD File 
E [auth A],
F [auth B]
MYRISTIC ACID
C14 H28 O2
TUNFSRHWOTWDNC-UHFFFAOYSA-N
GOL
Query on GOL

Download Ideal Coordinates CCD File 
G [auth B]GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
CL
Query on CL

Download Ideal Coordinates CCD File 
H [auth C]CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free:  0.255 (Depositor), 0.245 (DCC) 
  • R-Value Work:  0.215 (Depositor), 0.207 (DCC) 
  • R-Value Observed: 0.217 (Depositor) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 73.709α = 90
b = 81.877β = 97.31
c = 76.596γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
XDSdata reduction
STARANISOdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other private--

Revision History  (Full details and data files)

  • Version 1.0: 2026-02-04
    Type: Initial release