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Open data
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Basic information
Entry | ![]() | |||||||||
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Title | SARS-CoV-2 DMV nsp3-4 pore complex (extended-pore) | |||||||||
![]() | local resolution map | |||||||||
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![]() | Double membrane vesicle / pore complex / nsp3 / nsp4 / RNA transport / VIRAL PROTEIN | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | subtomogram averaging / cryo EM / Resolution: 4.7 Å | |||||||||
![]() | Huang YX / Zhong LJ / Zhang WX / Ni T | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Molecular Architecture of Coronavirus Double Membrane Vesicle Pore Complex Authors: Huang YX / Ni T #1: ![]() Title: Real-space refinement in PHENIX for cryo-EM and crystallography Authors: Afonine PV / Adams PD | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 51.3 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 15.4 KB 15.4 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 10.2 KB | Display | ![]() |
Images | ![]() | 104.4 KB | ||
Masks | ![]() | 91.1 MB | ![]() | |
Filedesc metadata | ![]() | 4.6 KB | ||
Others | ![]() ![]() | 43.6 MB 43.6 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
EMDB pages | ![]() ![]() |
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Map
File | ![]() | ||||||||||||||||||||
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Annotation | local resolution map | ||||||||||||||||||||
Voxel size | X=Y=Z: 1.571 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: #2
File | emd_39111_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_39111_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
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Sample components
-Entire : SARS-CoV-2 nsp3-4 pore complex
Entire | Name: SARS-CoV-2 nsp3-4 pore complex |
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Components |
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-Supramolecule #1: SARS-CoV-2 nsp3-4 pore complex
Supramolecule | Name: SARS-CoV-2 nsp3-4 pore complex / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#2 |
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Source (natural) | Organism: ![]() ![]() |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | subtomogram averaging |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 8 Component:
Details: 150mM NaCl, 10mM Tris-HCl, 1mM EDTA | ||||||||||||
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Grid | Model: EMS Lacey Carbon / Support film - Material: CARBON | ||||||||||||
Vitrification | Cryogen name: ETHANE / Chamber humidity: 95 % / Chamber temperature: 277.15 K / Instrument: FEI VITROBOT MARK IV |
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Electron microscopy
Microscope | TFS KRIOS |
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Image recording | Film or detector model: TFS FALCON 4i (4k x 4k) / Average electron dose: 3.0 e/Å2 Details: The tilt-series were acquired using Thermofisher Krios equipped with a Falcon 4i camera and Selectris energy filter. A dose-symmetric scheme (group of 2) was used, with a tilt range of -51 ...Details: The tilt-series were acquired using Thermofisher Krios equipped with a Falcon 4i camera and Selectris energy filter. A dose-symmetric scheme (group of 2) was used, with a tilt range of -51 to 51 (or -60 to 60) at 3 increments and an exposure dose of 3 e-/A2 per image. The total dose was 105 (or 123) e-/A2. |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 6.0 µm / Nominal defocus min: 1.0 µm / Nominal magnification: 81000 |
Sample stage | Cooling holder cryogen: NITROGEN |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
-Atomic model buiding 1
Refinement | Space: REAL / Protocol: FLEXIBLE FIT |
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