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Yorodumi- EMDB-11514: Molecular pore spanning the double membranes of murine coronavira... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-11514 | |||||||||
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Title | Molecular pore spanning the double membranes of murine coronaviral (MHV-A59) replication organelles. | |||||||||
Map data | In situ structure of the molecular pore that spans the double membranes of coronavirus (MHV-A59) induced replication organelles. | |||||||||
Sample |
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Biological species | Murine hepatitis virus strain A59 | |||||||||
Method | subtomogram averaging / cryo EM / Resolution: 30.5 Å | |||||||||
Authors | Barcena M / Wolff G | |||||||||
Funding support | Netherlands, 1 items
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Citation | Journal: Science / Year: 2020 Title: A molecular pore spans the double membrane of the coronavirus replication organelle. Authors: Georg Wolff / Ronald W A L Limpens / Jessika C Zevenhoven-Dobbe / Ulrike Laugks / Shawn Zheng / Anja W M de Jong / Roman I Koning / David A Agard / Kay Grünewald / Abraham J Koster / Eric J ...Authors: Georg Wolff / Ronald W A L Limpens / Jessika C Zevenhoven-Dobbe / Ulrike Laugks / Shawn Zheng / Anja W M de Jong / Roman I Koning / David A Agard / Kay Grünewald / Abraham J Koster / Eric J Snijder / Montserrat Bárcena / Abstract: Coronavirus genome replication is associated with virus-induced cytosolic double-membrane vesicles, which may provide a tailored microenvironment for viral RNA synthesis in the infected cell. ...Coronavirus genome replication is associated with virus-induced cytosolic double-membrane vesicles, which may provide a tailored microenvironment for viral RNA synthesis in the infected cell. However, it is unclear how newly synthesized genomes and messenger RNAs can travel from these sealed replication compartments to the cytosol to ensure their translation and the assembly of progeny virions. In this study, we used cellular cryo-electron microscopy to visualize a molecular pore complex that spans both membranes of the double-membrane vesicle and would allow export of RNA to the cytosol. A hexameric assembly of a large viral transmembrane protein was found to form the core of the crown-shaped complex. This coronavirus-specific structure likely plays a key role in coronavirus replication and thus constitutes a potential drug target. | |||||||||
History |
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-Structure visualization
Movie |
Movie viewer |
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Structure viewer | EM map: SurfViewMolmilJmol/JSmol |
Supplemental images |
-Downloads & links
-EMDB archive
Map data | emd_11514.map.gz | 3.1 MB | EMDB map data format | |
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Header (meta data) | emd-11514-v30.xml emd-11514.xml | 12.2 KB 12.2 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_11514_fsc.xml | 4.5 KB | Display | FSC data file |
Images | emd_11514.png | 60.5 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-11514 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-11514 | HTTPS FTP |
-Validation report
Summary document | emd_11514_validation.pdf.gz | 252 KB | Display | EMDB validaton report |
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Full document | emd_11514_full_validation.pdf.gz | 251.1 KB | Display | |
Data in XML | emd_11514_validation.xml.gz | 7.7 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-11514 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-11514 | HTTPS FTP |
-Related structure data
Related structure data | C: citing same article (ref.) |
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Similar structure data |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_11514.map.gz / Format: CCP4 / Size: 3.4 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | In situ structure of the molecular pore that spans the double membranes of coronavirus (MHV-A59) induced replication organelles. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 7.02 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Sample components
-Entire : Molecular pore containing hexameric nsp3 in the double membranes ...
Entire | Name: Molecular pore containing hexameric nsp3 in the double membranes of the replication organelles induced by murine coronavirus. |
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Components |
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-Supramolecule #1: Molecular pore containing hexameric nsp3 in the double membranes ...
Supramolecule | Name: Molecular pore containing hexameric nsp3 in the double membranes of the replication organelles induced by murine coronavirus. type: complex / ID: 1 / Parent: 0 Details: Upon infection with murine coronavirus (MHV-A59) the formation of ER derived double-membrane vesicles is induced in the host cell. The molecular pore spans the two membranes of these viral ...Details: Upon infection with murine coronavirus (MHV-A59) the formation of ER derived double-membrane vesicles is induced in the host cell. The molecular pore spans the two membranes of these viral replication organelles. |
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Source (natural) | Organism: Murine hepatitis virus strain A59 / Organelle: virus-induced double-membrane vesicles / Location in cell: perinuclear area |
Recombinant expression | Organism: Murine hepatitis virus strain A59 |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | subtomogram averaging |
Aggregation state | cell |
-Sample preparation
Buffer | pH: 7 |
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Grid | Model: Quantifoil / Material: GOLD / Mesh: 200 / Support film - Material: CARBON / Support film - topology: HOLEY / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Atmosphere: AIR |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 95 % / Chamber temperature: 310 K / Instrument: LEICA EM GP / Details: Blotting time 15s. |
Details | electron cryo-tomography of FIB-milled lamellae |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Specialist optics | Energy filter - Name: GIF Bioquantum / Energy filter - Slit width: 20 eV |
Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Average electron dose: 2.3 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 8.0 µm / Nominal defocus min: 5.0 µm / Nominal magnification: 42000 |
Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |