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Yorodumi- EMDB-18399: SARS-CoV-2 Spike in complex with the neutralizing antibody Cv2.3194 -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-18399 | |||||||||
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Title | SARS-CoV-2 Spike in complex with the neutralizing antibody Cv2.3194 | |||||||||
Map data | ||||||||||
Sample |
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Keywords | Coronavirus Neutralizing Antibody / VIRAL PROTEIN | |||||||||
Biological species | Severe acute respiratory syndrome coronavirus 2 | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.2 Å | |||||||||
Authors | Fernandez I / Rey FA / Guardado-Calvo P | |||||||||
Funding support | 1 items
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Citation | Journal: To Be Published Title: A broadly neutralizing antibody against SARS-CoV-2 Omicron variants Authors: Planchais C / Fernandez I / Rey FA / Mouquet H | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_18399.map.gz | 307 MB | EMDB map data format | |
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Header (meta data) | emd-18399-v30.xml emd-18399.xml | 10.8 KB 10.8 KB | Display Display | EMDB header |
Images | emd_18399.png | 64.1 KB | ||
Filedesc metadata | emd-18399.cif.gz | 3.6 KB | ||
Others | emd_18399_half_map_1.map.gz emd_18399_half_map_2.map.gz | 301.2 MB 301.1 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-18399 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-18399 | HTTPS FTP |
-Validation report
Summary document | emd_18399_validation.pdf.gz | 1.2 MB | Display | EMDB validaton report |
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Full document | emd_18399_full_validation.pdf.gz | 1.2 MB | Display | |
Data in XML | emd_18399_validation.xml.gz | 17 KB | Display | |
Data in CIF | emd_18399_validation.cif.gz | 20.2 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-18399 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-18399 | HTTPS FTP |
-Related structure data
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_18399.map.gz / Format: CCP4 / Size: 325 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.86 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_18399_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_18399_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Complex formed by the SARS-CoV-2 Spike and a Fab from the antibod...
Entire | Name: Complex formed by the SARS-CoV-2 Spike and a Fab from the antibody Cv2.3194 |
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Components |
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-Supramolecule #1: Complex formed by the SARS-CoV-2 Spike and a Fab from the antibod...
Supramolecule | Name: Complex formed by the SARS-CoV-2 Spike and a Fab from the antibody Cv2.3194 type: complex / ID: 1 / Parent: 0 |
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Source (natural) | Organism: Severe acute respiratory syndrome coronavirus 2 |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 8 |
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Vitrification | Cryogen name: ETHANE / Instrument: FEI VITROBOT MARK IV |
-Electron microscopy
Microscope | FEI TITAN |
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Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 3.0 µm / Nominal defocus min: 1.0 µm |
-Image processing
Startup model | Type of model: OTHER / Details: Ab-initio model |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 3.2 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 365979 |
Initial angle assignment | Type: NOT APPLICABLE |
Final angle assignment | Type: NOT APPLICABLE |