+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-19447 | |||||||||
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Title | Alpha-synuclein amyloid fibrils with deltaJ DNAJB1 | |||||||||
Map data | Postprocessed map of the complex formed of alpha-synuclein amyloid fibrils and deltaJ DANJB1 mutant | |||||||||
Sample |
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Keywords | Chaperones / amyloid fibril / PROTEIN FIBRIL | |||||||||
Biological species | Homo sapiens (human) | |||||||||
Method | helical reconstruction / cryo EM / Resolution: 25.0 Å | |||||||||
Authors | Saibil HR / Monistrol J | |||||||||
Funding support | United Kingdom, 2 items
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Citation | Journal: Biorxiv / Year: 2024 Title: Stepwise recruitment of Hsc70 by DNAJB1 produces ordered arrays primed for bursts of amyloid fibre disassembly Authors: Monistrol J / Beton JG / Johnston EC / Saibil HR | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_19447.map.gz | 958 KB | EMDB map data format | |
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Header (meta data) | emd-19447-v30.xml emd-19447.xml | 13.1 KB 13.1 KB | Display Display | EMDB header |
Images | emd_19447.png | 14.8 KB | ||
Masks | emd_19447_msk_1.map | 8 MB | Mask map | |
Filedesc metadata | emd-19447.cif.gz | 4.1 KB | ||
Others | emd_19447_half_map_1.map.gz emd_19447_half_map_2.map.gz | 6 MB 6 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-19447 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-19447 | HTTPS FTP |
-Validation report
Summary document | emd_19447_validation.pdf.gz | 626.5 KB | Display | EMDB validaton report |
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Full document | emd_19447_full_validation.pdf.gz | 626.1 KB | Display | |
Data in XML | emd_19447_validation.xml.gz | 8.7 KB | Display | |
Data in CIF | emd_19447_validation.cif.gz | 10.1 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-19447 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-19447 | HTTPS FTP |
-Related structure data
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_19447.map.gz / Format: CCP4 / Size: 8 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Annotation | Postprocessed map of the complex formed of alpha-synuclein amyloid fibrils and deltaJ DANJB1 mutant | ||||||||||||||||||||
Voxel size | X=Y=Z: 3.48 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Mask #1
File | emd_19447_msk_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: Unfiltered half map #1 of the complex formed...
File | emd_19447_half_map_1.map | ||||||||||||
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Annotation | Unfiltered half map #1 of the complex formed of alpha-synuclein amyloid fibrils and deltaJ DANJB1 mutant | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Unfiltered half map #2 of the complex formed...
File | emd_19447_half_map_2.map | ||||||||||||
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Annotation | Unfiltered half map #2 of the complex formed of alpha-synuclein amyloid fibrils and deltaJ DANJB1 mutant | ||||||||||||
Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Alpha-synuclein amyloid fibrils incubated with deltaJ DNAJB1
Entire | Name: Alpha-synuclein amyloid fibrils incubated with deltaJ DNAJB1 |
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Components |
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-Supramolecule #1: Alpha-synuclein amyloid fibrils incubated with deltaJ DNAJB1
Supramolecule | Name: Alpha-synuclein amyloid fibrils incubated with deltaJ DNAJB1 type: complex / ID: 1 / Parent: 0 |
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Source (natural) | Organism: Homo sapiens (human) |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | helical reconstruction |
Aggregation state | filament |
-Sample preparation
Buffer | pH: 7.5 Component:
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Grid | Model: C-flat-2/2 / Material: COPPER / Mesh: 400 / Support film - Material: CARBON / Support film - topology: HOLEY / Pretreatment - Type: GLOW DISCHARGE | |||||||||
Vitrification | Cryogen name: ETHANE / Instrument: LEICA EM GP |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 49.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 3.0 µm / Nominal defocus min: 1.5 µm |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
-Image processing
Final reconstruction | Applied symmetry - Helical parameters - Δz: 39.7201 Å Applied symmetry - Helical parameters - Δ&Phi: -11.488 ° Applied symmetry - Helical parameters - Axial symmetry: C1 (asymmetric) Resolution.type: BY AUTHOR / Resolution: 25.0 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 15385 |
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Startup model | Type of model: OTHER |
Final angle assignment | Type: NOT APPLICABLE |