8R3F

C-terminal Rel-homology Domain of NFAT1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.194 
  • R-Value Observed: 0.196 

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Ligand Structure Quality Assessment 


This is version 1.0 of the entry. See complete history


Literature

Ligandability assessment of the C-terminal Rel-homology domain of NFAT1.

Bottcher, J.Fuchs, J.E.Mayer, M.Kahmann, J.Zak, K.M.Wunberg, T.Woehrle, S.Kessler, D.

(2024) Arch Pharm (Weinheim) : e2300649-e2300649

  • DOI: https://doi.org/10.1002/ardp.202300649
  • Primary Citation of Related Structures:  
    8R07, 8R3F

  • PubMed Abstract: 

    Transcription factors are generally considered challenging, if not "undruggable", targets but they promise new therapeutic options due to their fundamental involvement in many diseases. In this study, we aim to assess the ligandability of the C-terminal Rel-homology domain of nuclear factor of activated T cells 1 (NFAT1), a TF implicated in T-cell regulation. Using a combination of experimental and computational approaches, we demonstrate that small molecule fragments can indeed bind to this protein domain. The newly identified binder is the first small molecule binder to NFAT1 validated with biophysical methods and an elucidated binding mode by X-ray crystallography. The reported eutomer/distomer pair provides a strong basis for potential exploration of higher potency binders on the path toward degrader or glue modalities.


  • Organizational Affiliation

    Boehringer Ingelheim RCV GmbH & Co KG, Vienna, Austria.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Nuclear factor of activated T-cells, cytoplasmic 2
A, B
105Homo sapiensMutation(s): 0 
Gene Names: NFATC2NFAT1NFATP
UniProt & NIH Common Fund Data Resources
Find proteins for Q13469 (Homo sapiens)
Explore Q13469 
Go to UniProtKB:  Q13469
PHAROS:  Q13469
GTEx:  ENSG00000101096 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ13469
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
XS8 (Subject of Investigation/LOI)
Query on XS8

Download Ideal Coordinates CCD File 
C [auth A],
D [auth B]
(4~{S})-6-fluoranyl-3,4-dihydro-2~{H}-chromen-4-amine
C9 H10 F N O
WVQYSVLMDHXHOV-QMMMGPOBSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.194 
  • R-Value Observed: 0.196 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 48.775α = 90
b = 40.279β = 97.255
c = 57.419γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PHENIXrefinement
XDSdata reduction
STARANISOdata scaling
PHASERphasing

Structure Validation

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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: 2024-03-06
    Type: Initial release