8P0M | pdb_00008p0m

Crystal structure of TEAD3 in complex with IAG933


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.96 Å
  • R-Value Free: 
    0.228 (Depositor), 0.223 (DCC) 
  • R-Value Work: 
    0.214 (Depositor), 0.207 (DCC) 
  • R-Value Observed: 
    0.215 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 8P0M

Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history

Literature

Direct and selective pharmacological disruption of the YAP-TEAD interface by IAG933 inhibits Hippo-dependent and RAS-MAPK-altered cancers.

Chapeau, E.A.Sansregret, L.Galli, G.G.Chene, P.Wartmann, M.Mourikis, T.P.Jaaks, P.Baltschukat, S.Barbosa, I.A.M.Bauer, D.Brachmann, S.M.Delaunay, C.Estadieu, C.Faris, J.E.Furet, P.Harlfinger, S.Hueber, A.Jimenez Nunez, E.Kodack, D.P.Mandon, E.Martin, T.Mesrouze, Y.Romanet, V.Scheufler, C.Sellner, H.Stamm, C.Sterker, D.Tordella, L.Hofmann, F.Soldermann, N.Schmelzle, T.

(2024) Nat Cancer 5: 1102-1120

  • DOI: https://doi.org/10.1038/s43018-024-00754-9
  • Primary Citation Related Structures: 
    8P0M

  • PubMed Abstract: 

    The YAP-TEAD protein-protein interaction mediates YAP oncogenic functions downstream of the Hippo pathway. To date, available YAP-TEAD pharmacologic agents bind into the lipid pocket of TEAD, targeting the interaction indirectly via allosteric changes. However, the consequences of a direct pharmacological disruption of the interface between YAP and TEADs remain largely unexplored. Here, we present IAG933 and its analogs as potent first-in-class and selective disruptors of the YAP-TEAD protein-protein interaction with suitable properties to enter clinical trials. Pharmacologic abrogation of the interaction with all four TEAD paralogs resulted in YAP eviction from chromatin and reduced Hippo-mediated transcription and induction of cell death. In vivo, deep tumor regression was observed in Hippo-driven mesothelioma xenografts at tolerated doses in animal models as well as in Hippo-altered cancer models outside mesothelioma. Importantly this also extended to larger tumor indications, such as lung, pancreatic and colorectal cancer, in combination with RTK, KRAS-mutant selective and MAPK inhibitors, leading to more efficacious and durable responses. Clinical evaluation of IAG933 is underway.


  • Organizational Affiliation
    • Novartis BioMedical Research, Basel, Switzerland. emilie.chapeau@novartis.com.

Macromolecule Content 

  • Total Structure Weight: 105.24 kDa 
  • Atom Count: 7,363 
  • Modeled Residue Count: 830 
  • Deposited Residue Count: 888 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Transcriptional enhancer factor TEF-5
A, B
222Homo 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:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Transcriptional enhancer factor TEF-5
C, D
222Homo sapiensMutation(s): 0 
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

Small Molecules

Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
WCF
(Subject of Investigation/LOI)

Query on WCF



Download:Ideal Coordinates CCD File
G [auth A],
J [auth B],
L [auth C],
O [auth D]
4-[(2~{S})-5-chloranyl-6-fluoranyl-2-phenyl-2-[(2~{S})-pyrrolidin-2-yl]-3~{H}-1-benzofuran-4-yl]-5-fluoranyl-6-(2-hydroxyethyloxy)-~{N}-methyl-pyridine-3-carboxamide
C27 H26 Cl F2 N3 O4
HUVOYQMXUNTUAI-DCFHFQCYSA-N
1PG

Query on 1PG



Download:Ideal Coordinates CCD File
E [auth A],
H [auth B],
M [auth D]
2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL
C11 H24 O6
SLNYBUIEAMRFSZ-UHFFFAOYSA-N
MYR

Query on MYR



Download:Ideal Coordinates CCD File
F [auth A],
I [auth B]
MYRISTIC ACID
C14 H28 O2
TUNFSRHWOTWDNC-UHFFFAOYSA-N
DMS

Query on DMS



Download:Ideal Coordinates CCD File
K [auth C],
N [auth D]
DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
MYK
Query on MYK
C, D
L-PEPTIDE LINKINGC20 H40 N2 O3LYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.96 Å
  • R-Value Free:  0.228 (Depositor), 0.223 (DCC) 
  • R-Value Work:  0.214 (Depositor), 0.207 (DCC) 
  • R-Value Observed: 0.215 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 65.503α = 90
b = 127.236β = 90
c = 155.536γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
autoPROCdata reduction
STARANISOdata 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: 2024-04-10
    Type: Initial release
  • Version 1.1: 2024-04-17
    Changes: Database references
  • Version 1.2: 2024-08-07
    Changes: Database references