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- EMDB-16813: Tomogram of GBP1 coatomers assembled on brain polar lipid-derived... -
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Open data
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Basic information
Entry | ![]() | |||||||||
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Title | Tomogram of GBP1 coatomers assembled on brain polar lipid-derived small unilamellar vesicles. | |||||||||
![]() | Electron cryotomogram of GBP1 coatomers on BPLE SUVs. | |||||||||
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![]() | GBP1 / cryo-ET / liposome / coatomer / IMMUNE SYSTEM | |||||||||
Biological species | ![]() | |||||||||
Method | electron tomography / cryo EM | |||||||||
![]() | Kuhm TI / Jakobi AJ | |||||||||
Funding support | European Union, ![]()
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![]() | ![]() Title: Structural basis of membrane targeting and coatomer formation by GBP1. Authors: Kuhm TI / de Agrela Pinto C / Huber S / Taisne C / Giannopoulou EA / Pardon E / Steyaert J / Jakobi AJ | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 1.2 GB | ![]() | |
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Header (meta data) | ![]() ![]() | 12.2 KB 12.2 KB | Display Display | ![]() |
Images | ![]() | 278.2 KB | ||
Masks | ![]() ![]() | 1.4 GB 1.4 GB | ![]() | |
Filedesc metadata | ![]() | 4.5 KB | ||
Others | ![]() | 9.9 GB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 429.7 KB | Display | ![]() |
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Full document | ![]() | 429.3 KB | Display | |
Data in XML | ![]() | 5 KB | Display | |
Data in CIF | ![]() | 5.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
EMDB pages | ![]() ![]() |
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Map
File | ![]() | ||||||||||||||||||||
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Annotation | Electron cryotomogram of GBP1 coatomers on BPLE SUVs. | ||||||||||||||||||||
Voxel size | X=Y=Z: 6.15 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Mask #1
File | ![]() | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Mask #2
File | ![]() | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Additional map: Unbinned electron cryotomogram of GBP1 coatomers on BPLE SUVs.
File | emd_16813_additional_1.map | ||||||||||||
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Annotation | Unbinned electron cryotomogram of GBP1 coatomers on BPLE SUVs. | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : Membrane-assembled coatomer formed by GDP-AlF3-stabilised GBP1 di...
Entire | Name: Membrane-assembled coatomer formed by GDP-AlF3-stabilised GBP1 dimers on brain polar lipid-derived SUVs. |
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Components |
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-Supramolecule #1: Membrane-assembled coatomer formed by GDP-AlF3-stabilised GBP1 di...
Supramolecule | Name: Membrane-assembled coatomer formed by GDP-AlF3-stabilised GBP1 dimers on brain polar lipid-derived SUVs. type: organelle_or_cellular_component / ID: 1 / Parent: 0 |
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Source (natural) | Organism: ![]() |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | electron tomography |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.4 |
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Grid | Model: Quantifoil R1.2/1.3 / Material: COPPER / Mesh: 200 / Support film - Material: CARBON / Support film - topology: HOLEY / Pretreatment - Type: GLOW DISCHARGE |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 98 % / Chamber temperature: 20 K / Instrument: LEICA EM GP / Details: Blotted for 4 seconds from the carbon side.. |
Sectioning | Other: NO SECTIONING |
Fiducial marker | Manufacturer: CMC Utrecht / Diameter: 10 nm |
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Electron microscopy
Microscope | JEOL 3200FSC |
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Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Digitization - Frames/image: 1-10 / Number grids imaged: 1 / Number real images: 61 / Average exposure time: 2.0 sec. / Average electron dose: 1.54 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Calibrated magnification: 12000 / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 4.1 mm / Nominal defocus max: 5.0 µm / Nominal defocus min: 5.0 µm |
Sample stage | Specimen holder model: JEOL 3200FSC CRYOHOLDER / Cooling holder cryogen: NITROGEN |
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Image processing
Final reconstruction | Algorithm: BACK PROJECTION / Resolution method: OTHER / Software - Name: ![]() |
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