[English] 日本語
![](img/lk-miru.gif)
- EMDB-15152: Cryo-electron tomogram of secreted particles from Apilactobacillu... -
+
Open data
-
Basic information
Entry | ![]() | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | Cryo-electron tomogram of secreted particles from Apilactobacillus kunkeei (TS_03) | |||||||||
![]() | ||||||||||
![]() |
| |||||||||
![]() | Membrane vesicles / extracellular protein complexes / UNKNOWN FUNCTION | |||||||||
Biological species | ![]() | |||||||||
Method | electron tomography / cryo EM | |||||||||
![]() | Seeger C / Andersson SGE | |||||||||
Funding support | ![]()
| |||||||||
![]() | ![]() Title: Cryo-eletron tomogram of secreted particles from Apilactobacillus kunkeei (TS_01) Authors: Seeger C / Andersson SGE | |||||||||
History |
|
-
Structure visualization
Supplemental images |
---|
-
Downloads & links
-EMDB archive
Map data | ![]() | 12.3 MB | ![]() | |
---|---|---|---|---|
Header (meta data) | ![]() ![]() | 8.2 KB 8.2 KB | Display Display | ![]() |
Images | ![]() | 252.6 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 544.3 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 543.8 KB | Display | |
Data in XML | ![]() | 2 KB | Display | |
Data in CIF | ![]() | 2.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
-
Links
EMDB pages | ![]() ![]() |
---|
-
Map
File | ![]() | ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Voxel size | X=Y=Z: 10.0923 Å | ||||||||||||||||||||
Density |
| ||||||||||||||||||||
Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
|
-Supplemental data
-
Sample components
-Entire : Secreted nanoparticles (membrane vesicles, protein complexes) fro...
Entire | Name: Secreted nanoparticles (membrane vesicles, protein complexes) from Apilactobacillus kunkeei |
---|---|
Components |
|
-Supramolecule #1: Secreted nanoparticles (membrane vesicles, protein complexes) fro...
Supramolecule | Name: Secreted nanoparticles (membrane vesicles, protein complexes) from Apilactobacillus kunkeei type: complex / ID: 1 / Parent: 0 |
---|---|
Source (natural) | Organism: ![]() |
-Experimental details
-Structure determination
Method | cryo EM |
---|---|
![]() | electron tomography |
Aggregation state | particle |
-
Sample preparation
Buffer | pH: 7.4 / Component - Concentration: 10.0 mM / Component - Name: Phosphate buffer / Details: 10 mM phosphate buffer, pH 7.4 |
---|---|
Grid | Model: Quantifoil / Support film - Material: CARBON / Support film - topology: HOLEY / Support film - Film thickness: 2 |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK IV / Details: blot time 5s. |
Sectioning | Other: NO SECTIONING |
Fiducial marker | Manufacturer: Aurion / Diameter: 10 nm |
-
Electron microscopy
Microscope | FEI TALOS ARCTICA |
---|---|
Image recording | Film or detector model: FEI FALCON III (4k x 4k) / Average exposure time: 3.0 sec. / Average electron dose: 95.0 e/Å2 |
Electron beam | Acceleration voltage: 200 kV / Electron source: OTHER |
Electron optics | C2 aperture diameter: 50.0 µm / Illumination mode: OTHER / Imaging mode: OTHER / Nominal defocus max: 6.0 µm / Nominal defocus min: 4.0 µm |
Sample stage | Cooling holder cryogen: NITROGEN |
Experimental equipment | ![]() Model: Talos Arctica / Image courtesy: FEI Company |
-
Image processing
Details | The initial raw movies were aligned and dose-weight filtered using alignframes from the IMOD package |
---|---|
Final reconstruction | Software - Name: ![]() |