+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-50660 | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | Cryo-electron tomogram of ATG2A and small unilamellar vesicles | |||||||||
Map data | Cryo-electron tomogram of ATG2A and small unilamellar vesicles (denoised using IsoNet) | |||||||||
Sample |
| |||||||||
Keywords | autophagy / intracellular trafficking / membranes / vesicles / LIPID TRANSPORT | |||||||||
Biological species | Homo sapiens (human) | |||||||||
Method | electron tomography / cryo EM | |||||||||
Authors | Dahmane S / Wang N / Stjepanovic G / Carlson LA | |||||||||
Funding support | Sweden, 2 items
| |||||||||
Citation | Journal: To Be Published Title: Structural basis for lipid transfer by the ATG2A-ATG9A complex Authors: Wang N / Dahmane S / Ti R / Mai X / Zhu L / Carlson LA / Stjepanovic G | |||||||||
History |
|
-Structure visualization
Supplemental images |
---|
-Downloads & links
-EMDB archive
Map data | emd_50660.map.gz | 189.2 MB | EMDB map data format | |
---|---|---|---|---|
Header (meta data) | emd-50660-v30.xml emd-50660.xml | 9.4 KB 9.4 KB | Display Display | EMDB header |
Images | emd_50660.png | 180.5 KB | ||
Filedesc metadata | emd-50660.cif.gz | 3.5 KB | ||
Others | emd_50660_additional_1.map.gz | 193.8 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-50660 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-50660 | HTTPS FTP |
-Validation report
Summary document | emd_50660_validation.pdf.gz | 314.9 KB | Display | EMDB validaton report |
---|---|---|---|---|
Full document | emd_50660_full_validation.pdf.gz | 314.4 KB | Display | |
Data in XML | emd_50660_validation.xml.gz | 4.7 KB | Display | |
Data in CIF | emd_50660_validation.cif.gz | 5.1 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-50660 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-50660 | HTTPS FTP |
-Related structure data
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
---|
-Map
File | Download / File: emd_50660.map.gz / Format: CCP4 / Size: 210.6 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Annotation | Cryo-electron tomogram of ATG2A and small unilamellar vesicles (denoised using IsoNet) | ||||||||||||||||||||
Voxel size | X=Y=Z: 11.12 Å | ||||||||||||||||||||
Density |
| ||||||||||||||||||||
Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
|
-Supplemental data
-Additional map: un-denoised tomogram
File | emd_50660_additional_1.map | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Annotation | un-denoised tomogram | ||||||||||||
Projections & Slices |
| ||||||||||||
Density Histograms |
-Sample components
-Entire : ATG2A and small unilamellar vesicles
Entire | Name: ATG2A and small unilamellar vesicles |
---|---|
Components |
|
-Supramolecule #1: ATG2A and small unilamellar vesicles
Supramolecule | Name: ATG2A and small unilamellar vesicles / type: complex / ID: 1 / Parent: 0 / Details: Purified human protein mixed with vesicles (SUVs). |
---|---|
Source (natural) | Organism: Homo sapiens (human) |
-Experimental details
-Structure determination
Method | cryo EM |
---|---|
Processing | electron tomography |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7 |
---|---|
Vitrification | Cryogen name: ETHANE-PROPANE |
Sectioning | Other: NO SECTIONING |
Fiducial marker | Manufacturer: CMC-Utrecht / Diameter: 10 nm |
-Electron microscopy
Microscope | TFS KRIOS |
---|---|
Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 2.5 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: 4.0 µm / Nominal defocus min: 3.0 µm |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
-Image processing
Final reconstruction | Number images used: 41 |
---|