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- EMDB-41920: Cryo-EM structure of human DNMT3A UDR bound to H2AK119ub1-modifie... -
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Open data
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Basic information
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Title | Cryo-EM structure of human DNMT3A UDR bound to H2AK119ub1-modified nucleosome | |||||||||
![]() | main map | |||||||||
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![]() | DNA cytosine methyltransferase / ![]() | |||||||||
Biological species | ![]() ![]() ![]() ![]() | |||||||||
Method | ![]() ![]() | |||||||||
![]() | Chen X / Song J | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Cryo-EM structure of human DNMT3A N-terminal domain bound to H2AK119Ub nucleosome Authors: Chen X / Song J | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 13.7 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 11.8 KB 11.8 KB | Display Display | ![]() |
Images | ![]() | 41.5 KB | ||
Filedesc metadata | ![]() | 3.7 KB | ||
Others | ![]() ![]() | 25.1 MB 25.1 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
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Annotation | main map | ||||||||||||||||||||||||||||||||||||
Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.2347 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: Half map 1
File | emd_41920_half_map_1.map | ||||||||||||
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Annotation | Half map 1 | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Half map 2
File | emd_41920_half_map_2.map | ||||||||||||
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Annotation | Half map 2 | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : DNMT3A N-terminal domain and H2AK119Ub nucleosome complex
Entire | Name: DNMT3A N-terminal domain and H2AK119Ub nucleosome complex |
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Components |
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-Supramolecule #1: DNMT3A N-terminal domain and H2AK119Ub nucleosome complex
Supramolecule | Name: DNMT3A N-terminal domain and H2AK119Ub nucleosome complex type: complex / ID: 1 / Parent: 0 |
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-Supramolecule #2: DNMT3A N-terminal domain/ubiquitin/nucleosome DNA
Supramolecule | Name: DNMT3A N-terminal domain/ubiquitin/nucleosome DNA / type: complex / ID: 2 / Parent: 1 |
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Source (natural) | Organism: ![]() ![]() |
-Supramolecule #3: histone
Supramolecule | Name: histone / type: complex / ID: 3 / Parent: 1 |
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Source (natural) | Organism: ![]() ![]() |
-Experimental details
-Structure determination
Method | ![]() |
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![]() | ![]() |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.5 |
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Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD![]() |
Image recording | Film or detector model: FEI FALCON IV (4k x 4k) / Average electron dose: 50.0 e/Å2 |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
Startup model | Type of model: NONE |
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Initial angle assignment | Type: ANGULAR RECONSTITUTION |
Final angle assignment | Type: ANGULAR RECONSTITUTION |
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 3.26 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 86685 |