7CMM | pdb_00007cmm

Crystal structure of TEAD1-YBD in complex with K-975


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Free: 
    0.284 (Depositor), 0.278 (DCC) 
  • R-Value Work: 
    0.234 (Depositor), 0.243 (DCC) 
  • R-Value Observed: 
    0.236 (Depositor) 

Starting Model: experimental
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Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history

Literature

The novel potent TEAD inhibitor, K-975, inhibits YAP1/TAZ-TEAD protein-protein interactions and exerts an anti-tumor effect on malignant pleural mesothelioma.

Kaneda, A.Seike, T.Danjo, T.Nakajima, T.Otsubo, N.Yamaguchi, D.Tsuji, Y.Hamaguchi, K.Yasunaga, M.Nishiya, Y.Suzuki, M.Saito, J.I.Yatsunami, R.Nakamura, S.Sekido, Y.Mori, K.

(2020) Am J Cancer Res 10: 4399-4415

  • Primary Citation Related Structures: 
    7CMM

  • PubMed Abstract: 

    The Hippo signaling pathway regulates cell fate and organ development. In the Hippo pathway, transcriptional enhanced associate domain (TEAD) which is a transcription factor is activated by forming a complex with yes-associated protein 1 (YAP1) or transcriptional coactivator with PDZ-binding motif (TAZ, also called WWTR1). Hyper-activation of YAP1/TAZ, leading to the activation of TEAD, has been reported in many cancers, including malignant pleural mesothelioma (MPM). Therefore, the YAP1/TAZ-TEAD complex is considered a novel therapeutic target for cancer treatment. However, few reports have described YAP1/TAZ-TEAD inhibitors, and their efficacy and selectivity are poor. In this study, we performed a high-throughput screening of a neurofibromin 2 (NF2)-deficient MPM cell line and a large tumor suppressor kinase 1/2 (LATS1/2)-deficient non-small-cell lung cancer cell line using a transcriptional reporter assay. After screening and optimization, K-975 was successfully identified as a potent inhibitor of YAP1/TAZ-TEAD signaling. X-ray crystallography revealed that K-975 was covalently bound to an internal cysteine residue located in the palmitate-binding pocket of TEAD. K-975 had a strong inhibitory effect against protein-protein interactions between YAP1/TAZ and TEAD in cell-free and cell-based assays. Furthermore, K-975 potently inhibited the proliferation of NF2-non-expressing MPM cell lines compared with NF2-expressing MPM cell lines. K-975 also suppressed tumor growth and provided significant survival benefit in MPM xenograft models. These findings indicate that K-975 is a strong and selective TEAD inhibitor with the potential to become an effective drug candidate for MPM therapy.


  • Organizational Affiliation
    • R&D Division, Kyowa Kirin Co., Ltd Shizuoka, Japan.

Macromolecule Content 

  • Total Structure Weight: 107.44 kDa 
  • Atom Count: 6,492 
  • Modeled Residue Count: 803 
  • Deposited Residue Count: 920 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Transcriptional enhancer factor TEF-1
A, B, C, D
230Homo 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
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Free:  0.284 (Depositor), 0.278 (DCC) 
  • R-Value Work:  0.234 (Depositor), 0.243 (DCC) 
  • R-Value Observed: 0.236 (Depositor) 
Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 147.99α = 90
b = 151.81β = 90
c = 67.53γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
MOLREPphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2021-02-03
    Type: Initial release
  • Version 1.1: 2023-11-29
    Changes: Data collection, Database references, Refinement description
  • Version 1.2: 2024-10-16
    Changes: Structure summary