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Open data
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Basic information
Entry | Database: EMDB / ID: EMD-0974 | |||||||||
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Title | Structure of nucleosome-bound human BAF complex | |||||||||
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![]() | Structure of nucleosome-bound human BAF complex
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Function / homology | ![]() optic cup formation involved in camera-type eye development / cardiac chamber development / formation of primary germ layer / negative regulation of myeloid progenitor cell differentiation / H3K9me3 modified histone binding / single stranded viral RNA replication via double stranded DNA intermediate / negative regulation of histone H3-K9 dimethylation / positive regulation of norepinephrine uptake / cellular response to cytochalasin B / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() | |||||||||
Biological species | ![]() ![]() ![]() ![]() ![]() | |||||||||
Method | ![]() ![]() | |||||||||
![]() | Shuang H / Zihan W / Yuan T / Zishuo Y / Jiali Y / Xinxin W / Jie L / Bijun L / Yanhui X | |||||||||
![]() | ![]() Title: Structure of nucleosome-bound human BAF complex. Authors: Shuang He / Zihan Wu / Yuan Tian / Zishuo Yu / Jiali Yu / Xinxin Wang / Jie Li / Bijun Liu / Yanhui Xu / ![]() Abstract: Mammalian SWI/SNF family chromatin remodelers, BRG1/BRM-associated factor (BAF) and polybromo-associated BAF (PBAF), regulate chromatin structure and transcription, and their mutations are linked to ...Mammalian SWI/SNF family chromatin remodelers, BRG1/BRM-associated factor (BAF) and polybromo-associated BAF (PBAF), regulate chromatin structure and transcription, and their mutations are linked to cancers. The 3.7-angstrom-resolution cryo-electron microscopy structure of human BAF bound to the nucleosome reveals that the nucleosome is sandwiched by the base and the adenosine triphosphatase (ATPase) modules, which are bridged by the actin-related protein (ARP) module. The ATPase motor is positioned proximal to nucleosomal DNA and, upon ATP hydrolysis, engages with and pumps DNA along the nucleosome. The C-terminal α helix of SMARCB1, enriched in positively charged residues frequently mutated in cancers, mediates interactions with an acidic patch of the nucleosome. AT-rich interactive domain-containing protein 1A (ARID1A) and the SWI/SNF complex subunit SMARCC serve as a structural core and scaffold in the base module organization, respectively. Our study provides structural insights into subunit organization and nucleosome recognition of human BAF complex. | |||||||||
Validation Report | ![]() ![]() ![]() ![]() | |||||||||
History |
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Structure visualization
Movie |
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Structure viewer | EM map: ![]() ![]() ![]() |
Supplemental images |
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Downloads & links
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Download
Header (meta data in XML format) |
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Images |
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Archive directory |
-Related structure data
Related structure data | ![]() 6ltjCMU ![]() 0968C ![]() 0969C ![]() 0970C ![]() 0971C ![]() 0972C ![]() 0973C ![]() 6lthC C: citing same article ( M: atomic model generated by this map U: unfit; in different coordinate system*YM |
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Similar-shape strucutres |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
File | ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.04 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
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Sample components
+Entire Structure of nucleosome-bound human BAF complex
+Component #1: protein, Structure of nucleosome-bound human BAF complex
+Component #2: protein, Nucleosome
+Component #3: protein, BAF
+Component #4: protein, Histone H3.3
+Component #5: protein, Histone H4
+Component #6: protein, Histone H2A type 1
+Component #7: protein, Histone H2B
+Component #8: protein, Transcription activator BRG1
+Component #9: protein, Actin-like protein 6A
+Component #10: protein, Actin, cytoplasmic 1
+Component #11: protein, AT-rich interactive domain-containing protein 1A
+Component #12: protein, SWI/SNF-related matrix-associated actin-dependent regula...
+Component #13: protein, SWI/SNF complex subunit SMARCC2
+Component #14: protein, SWI/SNF-related matrix-associated actin-dependent regula...
+Component #15: protein, SWI/SNF-related matrix-associated actin-dependent regula...
+Component #16: protein, Zinc finger protein ubi-d4
+Component #17: nucleic-acid, DNA (119-MER)
+Component #18: nucleic-acid, DNA (119-MER)
+Component #19: ligand, ZINC ION
-Experimental details
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Sample preparation
Specimen | Specimen state: Particle / Method: ![]() |
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Sample solution | pH: 8 |
Vitrification | Cryogen name: ETHANE / Humidity: 100 % |
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Electron microscopy imaging
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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![]() | Microscope: FEI TITAN KRIOS |
Electron gun | Electron source: FIELD EMISSION GUN![]() |
Lens | Imaging mode: OTHER |
Specimen Holder | Model: OTHER |
Camera | Detector: GATAN K2 SUMMIT (4k x 4k) |
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Image processing
![]() | Method: ![]() |
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3D reconstruction | Software: RELION / Resolution: 3.7 Å / Resolution method: FSC 0.143 CUT-OFF |
-Atomic model buiding
Output model |
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