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Open data
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Basic information
Entry | ![]() | |||||||||||||||
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Title | 3-fold block of DNA-Full medusavirus capsid | |||||||||||||||
![]() | 3-fold block of DNA-Full medusavirus capsid | |||||||||||||||
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![]() | Giant virus / NCLDV / Icosahedral / VIRUS | |||||||||||||||
Biological species | ![]() | |||||||||||||||
Method | single particle reconstruction / cryo EM / Resolution: 8.54 Å | |||||||||||||||
![]() | Murata K / Song C / Watanabe R | |||||||||||||||
Funding support | ![]()
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![]() | ![]() Title: Subnanometer structure of medusavirus capsid during maturation using cryo-electron microscopy Authors: Watanabe R / Song C / Takemura M / Murata K | |||||||||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 41.9 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 14.4 KB 14.4 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 14.2 KB | Display | ![]() |
Images | ![]() | 141.5 KB | ||
Filedesc metadata | ![]() | 4.1 KB | ||
Others | ![]() ![]() | 209.9 MB 209.9 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 1 MB | Display | ![]() |
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Full document | ![]() | 1 MB | Display | |
Data in XML | ![]() | 21.7 KB | Display | |
Data in CIF | ![]() | 29 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 | 3-fold block of DNA-Full medusavirus capsid | ||||||||||||||||||||
Voxel size | X=Y=Z: 3.03 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #1
File | emd_39295_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_39295_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
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Sample components
-Entire : Acanthamoeba castellanii medusavirus
Entire | Name: ![]() |
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Components |
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-Supramolecule #1: Acanthamoeba castellanii medusavirus
Supramolecule | Name: Acanthamoeba castellanii medusavirus / type: virus / ID: 1 / Parent: 0 / NCBI-ID: 2080449 / Sci species name: Acanthamoeba castellanii medusavirus / Virus type: VIRION / Virus isolate: SPECIES / Virus enveloped: No / Virus empty: No |
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Host (natural) | Organism: ![]() |
Virus shell | Shell ID: 1 / Name: capsid / Diameter: 260.0 Å / T number (triangulation number): 277 |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.4 |
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Vitrification | Cryogen name: ETHANE / Chamber humidity: 95 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK IV |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Temperature | Min: 76.0 K / Max: 77.0 K |
Image recording | Film or detector model: FEI FALCON III (4k x 4k) / Number real images: 2084 / Average exposure time: 3.0 sec. / Average electron dose: 30.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | C2 aperture diameter: 100.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 0.1 mm / Nominal defocus max: 2.5 µm / Nominal defocus min: 1.0 µm / Nominal magnification: 22500 |
Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |