9B9V

Cryo-EM structure of the ZBTB9 BTB domain filament


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.10 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

Starting Model: in silico
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wwPDB Validation   3D Report Full Report


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Literature

Polymerization of ZBTB transcription factors regulates chromatin occupancy.

Park, P.M.C.Park, J.Brown, J.Hunkeler, M.Roy Burman, S.S.Donovan, K.A.Yoon, H.Nowak, R.P.Slabicki, M.Ebert, B.L.Fischer, E.S.

(2024) Mol Cell 84: 2511-2524.e8

  • DOI: https://doi.org/10.1016/j.molcel.2024.06.010
  • Primary Citation of Related Structures:  
    9B9R, 9B9V

  • PubMed Abstract: 

    BCL6, an oncogenic transcription factor (TF), forms polymers in the presence of a small-molecule molecular glue that stabilizes a complementary interface between homodimers of BCL6's broad-complex, tramtrack, and bric-à-brac (BTB) domain. The BTB domains of other proteins, including a large class of TFs, have similar architectures and symmetries, raising the possibility that additional BTB proteins self-assemble into higher-order structures. Here, we surveyed 189 human BTB proteins with a cellular fluorescent reporter assay and identified 18 ZBTB TFs that show evidence of polymerization. Through biochemical and cryoelectron microscopy (cryo-EM) studies, we demonstrate that these ZBTB TFs polymerize into filaments. We found that BTB-domain-mediated polymerization of ZBTB TFs enhances chromatin occupancy within regions containing homotypic clusters of TF binding sites, leading to repression of target genes. Our results reveal a role of higher-order structures in regulating ZBTB TFs and suggest an underappreciated role for TF polymerization in modulating gene expression.


  • Organizational Affiliation

    Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA 02115, USA; Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Zinc finger and BTB domain-containing protein 9
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L, M, N
176Homo sapiensMutation(s): 0 
Gene Names: ZBTB9
UniProt & NIH Common Fund Data Resources
Find proteins for Q96C00 (Homo sapiens)
Explore Q96C00 
Go to UniProtKB:  Q96C00
PHAROS:  Q96C00
GTEx:  ENSG00000213588 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ96C00
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.10 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21.1_5286

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2024-07-24
    Type: Initial release