9UXC | pdb_00009uxc

The ADP-bound structure of BCL7B-containing ARP module of the human SWI/SNF complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.74 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

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This is version 1.0 of the entry. See complete history

Literature

Structural basis for BCL7B-mediated ncBAF-nucleosome engagement.

Sun, F.Zou, B.Li, H.Xu, C.Luo, Q.Wang, C.Xu, P.Pei, D.Chen, J.Qin, D.Zhang, Y.He, J.

(2026) Nucleic Acids Res 54

  • DOI: https://doi.org/10.1093/nar/gkag092
  • Primary Citation Related Structures: 
    9UX9, 9UXA, 9UXB, 9UXC

  • PubMed Abstract: 

    The mammalian SWI/SNF family of chromatin remodelers comprises BRG1/BRM-associated factor (cBAF), polybromo-associated BAF (PBAF), and non-canonical BAF (ncBAF) complexes, which slide and disassemble nucleosomes to regulate gene expression and chromatin structure dependent on ATP hydrolysis energy. While the chromatin engagement mechanisms of cBAF and PBAF have been structurally resolved, the molecular architecture governing ncBAF interaction with chromatin remains elusive. In this study, by integrating cryo-electron microscopy, biochemical assays, and cross-linking mass spectrometry, we resolved the conformational transition of ncBAF-nucleosome complexes from nucleotide-free to nucleotide-bound states. Our analyses establish BCL7 proteins as dynamic molecular tethers connecting the ARP module to the nucleosomal acidic patch and demonstrate that BCL7B promotes ncBAF-mediated nucleosome remodeling, with BRG1-catalyzed ATP hydrolysis triggering conformational changes that modulate BCL7-mediated histone association. Structurally and biochemically, we further demonstrate that β-actin within the BCL7-containing ARP module retains ATP hydrolysis activity, rendering its exposed pointed end structurally compatible with incorporation into the barbed end of nuclear actin filaments, which provides a potential molecular basis for coordinating nuclear actin networks with chromatin remodeling. Collectively, our findings unravel a dynamic role of BCL7 in regulating ncBAF-mediated chromatin remodeling and establish a distinct chromatin engagement mode of ncBAF from that of cBAF/PBAF.


  • Organizational Affiliation
    • State Key Laboratory of Respiratory Disease, Center for Biomedical Digital Science, GIBH-CUHK Joint Research Laboratory on Stem Cell and Regenerative Medicine, Guangdong Provincial Key Laboratory of Stem Cell and Regenerative Medicine, Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences, Guangzhou 510530, China.

Macromolecule Content 

  • Total Structure Weight: 124.48 kDa 
  • Atom Count: 6,400 
  • Modeled Residue Count: 808 
  • Deposited Residue Count: 1,110 
  • Unique protein chains: 4

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Transcription activator BRG1101Homo sapiensMutation(s): 0 
Gene Names: SMARCA4BAF190ABRG1SNF2BSNF2L4
EC: 3.6.4
UniProt & NIH Common Fund Data Resources
Find proteins for P51532 (Homo sapiens)
Explore P51532 
Go to UniProtKB:  P51532
PHAROS:  P51532
GTEx:  ENSG00000127616 
Entity Groups
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UniProt GroupP51532
Sequence Annotations
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Reference Sequence
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Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Actin, cytoplasmic 1, N-terminally processed376Homo sapiensMutation(s): 0 
Gene Names: ACTB
EC: 3.6.4
UniProt & NIH Common Fund Data Resources
Find proteins for P60709 (Homo sapiens)
Explore P60709 
Go to UniProtKB:  P60709
PHAROS:  P60709
GTEx:  ENSG00000075624 
Entity Groups
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UniProt GroupP60709
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Reference Sequence
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Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
Actin-like protein 6A430Homo sapiensMutation(s): 0 
Gene Names: ACTL6ABAF53BAF53AINO80K
UniProt & NIH Common Fund Data Resources
Find proteins for O96019 (Homo sapiens)
Explore O96019 
Go to UniProtKB:  O96019
PHAROS:  O96019
GTEx:  ENSG00000136518 
Entity Groups
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UniProt GroupO96019
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Reference Sequence
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Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
B-cell CLL/lymphoma 7 protein family member B203Homo sapiensMutation(s): 0 
Gene Names: BCL7B
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BQE9 (Homo sapiens)
Explore Q9BQE9 
Go to UniProtKB:  Q9BQE9
PHAROS:  Q9BQE9
GTEx:  ENSG00000106635 
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UniProt GroupQ9BQE9
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.74 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China32361163669
Other governmentChina2023M743512
National Natural Science Foundation of China (NSFC)China32170189
National Natural Science Foundation of China (NSFC)China32241021
Other governmentChinaGZC20232691
Other governmentChina2023A1515110923

Revision History  (Full details and data files)

  • Version 1.0: 2026-05-06
    Type: Initial release