9PFO | pdb_00009pfo

Structure of POU2F3 POU domains bound to coactivator OCA-T2 and DNA (2.1 angstrom resolution)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 
    0.259 (Depositor), 0.259 (DCC) 
  • R-Value Work: 
    0.219 (Depositor), 0.220 (DCC) 
  • R-Value Observed: 
    0.221 (Depositor) 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural basis of DNA-dependent coactivator recruitment by the tuft cell master regulator POU2F3.

Alpsoy, A.Ipsaro, J.J.Skopelitis, D.Pal, S.Chung, F.S.Carpenter, S.Desmarais, J.J.Wu, X.S.Chang, K.DiMare, M.T.Harten, E.Bergman, S.Kinney, J.B.Engelman, J.A.Bhang, H.C.Joshua-Tor, L.Vakoc, C.R.

(2025) Cell Rep 44: 116572-116572

  • DOI: https://doi.org/10.1016/j.celrep.2025.116572
  • Primary Citation of Related Structures:  
    9PFN, 9PFO, 9PFP

  • PubMed Abstract: 

    The transcription factor POU2F3 defines the identity of tuft cells and underlies a distinct molecular subtype of small cell lung cancer (SCLC). Although POU2F3 is considered undruggable, its activity critically depends on the coactivators OCA-T1 and OCA-T2. Here, we demonstrate that acute suppression of either POU2F3 or OCA-T1 induces regression of tuft cell-like SCLC xenografts in vivo. To explore the structural basis and druggability of this dependency, we determine crystal structures of POU2F3 bound to OCA-T1 or OCA-T2 in complex with DNA, revealing a tripartite, DNA-dependent interface. We further employ deep mutational scanning to assess the functional impact of 4,218 missense variants in POU2F3 and OCA-T1, uncovering both mutation-sensitive hotspots and structurally constrained regions critical for tumor cell fitness. These findings define a transcriptional complex that integrates DNA recognition with coactivator recruitment and nominate POU2F3-OCA-T as a structurally tractable vulnerability in tuft cell-like carcinomas.


  • Organizational Affiliation
    • Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA.

Macromolecules

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
POU domain, class 2, transcription factor 3
A, E, I, M
160Homo sapiensMutation(s): 0 
Gene Names: POU2F3OTF11PLA1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UKI9 (Homo sapiens)
Explore Q9UKI9 
Go to UniProtKB:  Q9UKI9
PHAROS:  Q9UKI9
GTEx:  ENSG00000137709 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9UKI9
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
POU class 2 homeobox associating factor 3
B, F, J, N
39Homo sapiensMutation(s): 0 
Gene Names: POU2AF3C11orf93CASC13COLCA2
UniProt & NIH Common Fund Data Resources
Find proteins for A8K830 (Homo sapiens)
Explore A8K830 
Go to UniProtKB:  A8K830
PHAROS:  A8K830
GTEx:  ENSG00000214290 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA8K830
Sequence Annotations
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  • Reference Sequence

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Entity ID: 3
MoleculeChains LengthOrganismImage
DNA containing POU domain recognition element octamer (sense strand)
C, G, K, O
15Homo sapiens
Sequence Annotations
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  • Reference Sequence

Find similar nucleic acids by:  Sequence   |   3D Structure  

Entity ID: 4
MoleculeChains LengthOrganismImage
DNA containing POU domain recognition element octamer (antisense strand)
D, H, L, P
15Homo sapiens
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free:  0.259 (Depositor), 0.259 (DCC) 
  • R-Value Work:  0.219 (Depositor), 0.220 (DCC) 
  • R-Value Observed: 0.221 (Depositor) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 79.019α = 90
b = 95.802β = 101.24
c = 85.637γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
pointlessdata scaling
Aimlessdata scaling
PHASERphasing
Cootmodel building
PHENIXrefinement
MolProbitymodel building
PDB_EXTRACTdata extraction

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesCA045508
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesCA013106
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesCA242919
Department of Defense (DOD, United States)United StatesW81XWH1910317
Howard Hughes Medical Institute (HHMI)United States--
Other privateCold Spring Harbor Laboratory and Northwell Health Affiliation
Other privatePershing Square Sohn Cancer Research Alliance
Other privateTreeline Biosciences

Revision History  (Full details and data files)

  • Version 1.0: 2025-10-01
    Type: Initial release
  • Version 1.1: 2025-12-03
    Changes: Database references
  • Version 1.2: 2025-12-10
    Changes: Database references