+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-42372 | |||||||||
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Title | Mouse apoferritin imaged with a round aperture | |||||||||
Map data | Map of mouse apoferritin imaged with a round aperture | |||||||||
Sample |
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Keywords | Iron binding / storage / METAL BINDING PROTEIN | |||||||||
Biological species | Mus musculus (house mouse) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.06 Å | |||||||||
Authors | Chua EYD / Alink LM / Kopylov M / Johnston J / Einsenstein F / de Marco A | |||||||||
Funding support | United States, 2 items
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Citation | Journal: Nat Methods / Year: 2024 Title: Square beams for optimal tiling in transmission electron microscopy. Authors: Eugene Y D Chua / Lambertus M Alink / Mykhailo Kopylov / Jake D Johnston / Fabian Eisenstein / Alex de Marco / Abstract: Imaging large fields of view at a high magnification requires tiling. Transmission electron microscopes typically have round beam profiles; therefore, tiling across a large area is either imperfect ...Imaging large fields of view at a high magnification requires tiling. Transmission electron microscopes typically have round beam profiles; therefore, tiling across a large area is either imperfect or results in uneven exposures, a problem for dose-sensitive samples. Here, we introduce a square electron beam that can easily be retrofitted in existing microscopes, and demonstrate its application, showing that it can tile nearly perfectly and deliver cryo-electron microscopy imaging with a resolution comparable to conventional set-ups. | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_42372.map.gz | 33.7 MB | EMDB map data format | |
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Header (meta data) | emd-42372-v30.xml emd-42372.xml | 14.5 KB 14.5 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_42372_fsc.xml | 8.5 KB | Display | FSC data file |
Images | emd_42372.png | 51.8 KB | ||
Filedesc metadata | emd-42372.cif.gz | 4.2 KB | ||
Others | emd_42372_half_map_1.map.gz emd_42372_half_map_2.map.gz | 62 MB 62 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-42372 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-42372 | HTTPS FTP |
-Related structure data
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_42372.map.gz / Format: CCP4 / Size: 67 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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Annotation | Map of mouse apoferritin imaged with a round aperture | ||||||||||||||||||||||||||||||||||||
Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.844 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: Half map A of mouse apoferritin imaged with a round aperture
File | emd_42372_half_map_1.map | ||||||||||||
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Annotation | Half map A of mouse apoferritin imaged with a round aperture | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Half map B of mouse apoferritin imaged with a round aperture
File | emd_42372_half_map_2.map | ||||||||||||
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Annotation | Half map B of mouse apoferritin imaged with a round aperture | ||||||||||||
Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Apoferritin
Entire | Name: ApoferritinFerritin |
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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: Mus musculus (house mouse) |
Molecular weight | Theoretical: 450 KDa |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Concentration | 8 mg/mL |
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Buffer | pH: 7.5 |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 298 K / Instrument: FEI VITROBOT MARK III |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | C2 aperture diameter: 100.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Cs: 2.7 mm / Nominal defocus max: 2.5 µm / Nominal defocus min: 0.8 µm / Nominal magnification: 105000 |
Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN |
Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average exposure time: 2.0 sec. / Average electron dose: 52.53 e/Å2 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |