7QDT

Crystal structure of a mutant (P393GX) Thyroid Receptor Alpha ligand binding domain designed to model dominant negative human mutations.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.183 
  • R-Value Observed: 0.186 

Starting Model: experimental
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Ligand Structure Quality Assessment 


This is version 2.1 of the entry. See complete history


Literature

Structure-Guided Approach to Relieving Transcriptional Repression in Resistance to Thyroid Hormone alpha.

Romartinez-Alonso, B.Agostini, M.Jones, H.McLellan, J.Sood, D.E.Tomkinson, N.Marelli, F.Gentile, I.Visser, W.E.Schoenmakers, E.Fairall, L.Privalsky, M.Moran, C.Persani, L.Chatterjee, K.Schwabe, J.W.R.

(2022) Mol Cell Biol 42: e0036321-e0036321

  • DOI: https://doi.org/10.1128/MCB.00363-21
  • Primary Citation of Related Structures:  
    7QDT

  • PubMed Abstract: 

    Mutations in thyroid hormone receptor α (TRα), a ligand-inducible transcription factor, cause resistance to thyroid hormone α (RTHα). This disorder is characterized by tissue-specific hormone refractoriness and hypothyroidism due to the inhibition of target gene expression by mutant TRα-corepressor complexes. Using biophysical approaches, we show that RTHα-associated TRα mutants devoid of ligand-dependent transcription activation function unexpectedly retain the ability to bind thyroid hormone. Visualization of the ligand T3 within the crystal structure of a prototypic TRα mutant validates this notion. This finding prompted the synthesis of different thyroid hormone analogues, identifying a lead compound, ES08, which dissociates corepressor from mutant human TRα more efficaciously than T3. ES08 rescues developmental anomalies in a zebrafish model of RTHα and induces target gene expression in TRα mutation-containing cells from an RTHα patient more effectively than T3. Our observations provide proof of principle for developing synthetic ligands that can relieve transcriptional repression by the mutant TRα-corepressor complex for treatment of RTHα.


  • Organizational Affiliation

    Leicester Institute of Structural and Chemical Biology, Department of Molecular and Cell Biology, University of Leicestergrid.9918.9, Leicester, United Kingdom.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Isoform Alpha-1 of Thyroid hormone receptor alpha236Homo sapiensMutation(s): 0 
Gene Names: THRAEAR7ERBA1NR1A1THRA1THRA2
UniProt & NIH Common Fund Data Resources
Find proteins for P10827 (Homo sapiens)
Explore P10827 
Go to UniProtKB:  P10827
PHAROS:  P10827
GTEx:  ENSG00000126351 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP10827
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
T3 (Subject of Investigation/LOI)
Query on T3

Download Ideal Coordinates CCD File 
B [auth A]3,5,3'TRIIODOTHYRONINE
C15 H12 I3 N O4
AUYYCJSJGJYCDS-LBPRGKRZSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.183 
  • R-Value Observed: 0.186 
  • Space Group: P 64 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 143.328α = 90
b = 143.328β = 90
c = 88.502γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Communitys Seventh Framework ProgrammeEuropean UnionPITN-GA-2013-606806

Revision History  (Full details and data files)

  • Version 1.0: 2022-01-26
    Type: Initial release
  • Version 1.1: 2022-03-02
    Changes: Database references
  • Version 2.0: 2023-11-15
    Changes: Atomic model, Data collection
  • Version 2.1: 2024-01-31
    Changes: Refinement description