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- EMDB-39481: 2.08A Apoferritin Structure Solved Using an Indirect Scintillator... -
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Open data
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Basic information
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Title | 2.08A Apoferritin Structure Solved Using an Indirect Scintillator-Coupled CMOS Detector at 300 kV | |||||||||
![]() | FSC-weighted, shapened and masked map by PostProcess. | |||||||||
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![]() | apoferritin / ferritin / METAL BINDING PROTEIN | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.08 Å | |||||||||
![]() | Aramaki S / Yoshida Y / Tanihara T / Oyama K / Otsuki K / Terada Y / Matsunaga N / Ohdo S / Mayanagi K | |||||||||
Funding support | 1 items
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![]() | ![]() Title: High-Resolution Single Particle Analysis Using an Indirect Scintillator-Coupled CMOS Detector at 300 kV Authors: Aramaki S / Yoshida Y / Tanihara T / Oyama K / Otsuki K / Terada Y / Matsunaga N / Ohdo S / Mayanagi K | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 13.9 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 15.7 KB 15.7 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 12.3 KB | Display | ![]() |
Images | ![]() | 140 KB | ||
Masks | ![]() | 22.2 MB | ![]() | |
Filedesc metadata | ![]() | 4.6 KB | ||
Others | ![]() ![]() | 16.8 MB 16.8 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 859.1 KB | Display | ![]() |
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Full document | ![]() | 858.6 KB | Display | |
Data in XML | ![]() | 15.6 KB | Display | |
Data in CIF | ![]() | 20.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
EMDB pages | ![]() ![]() |
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Map
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Annotation | FSC-weighted, shapened and masked map by PostProcess. | ||||||||||||||||||||
Voxel size | X=Y=Z: 0.8512 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Mask #1
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_39481_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_39481_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
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Sample components
-Entire : apoferritin
Entire | Name: apoferritin |
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Components |
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-Supramolecule #1: apoferritin
Supramolecule | Name: apoferritin / type: complex / ID: 1 / Parent: 0 |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 440 KDa |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Concentration | 11 mg/mL | ||||||||||||
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Buffer | pH: 7.5 Component:
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Grid | Model: Quantifoil / Material: COPPER / Mesh: 200 / Support film - Material: CARBON / Support film - topology: HOLEY ARRAY / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Atmosphere: AIR | ||||||||||||
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277.15 K / Instrument: FEI VITROBOT MARK IV |
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Electron microscopy
Microscope | JEOL CRYO ARM 300 |
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Specialist optics | Phase plate: OTHER / Energy filter - Name: In-column Omega Filter / Energy filter - Slit width: 20 eV |
Image recording | Film or detector model: OTHER / Digitization - Dimensions - Width: 4096 pixel / Digitization - Dimensions - Height: 4096 pixel / Number grids imaged: 1 / Number real images: 1893 / Average exposure time: 2.3 sec. / Average electron dose: 92.9 e/Å2 / Details: TVIPS TemCam-XF416 (4k x 4k) |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | C2 aperture diameter: 50.0 µm / Illumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 1.5 µm / Nominal defocus min: 0.2 µm / Nominal magnification: 200000 |
Sample stage | Specimen holder model: JEOL CRYOSPECPORTER / Cooling holder cryogen: NITROGEN |