+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-16868 | |||||||||
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Title | Nucleocapsid protein Sars-Cov2, refined map | |||||||||
Map data | map | |||||||||
Sample |
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Keywords | Nucleocapsid protein / Sars-Cov2 / N protein / RNA BINDING PROTEIN | |||||||||
Biological species | Severe acute respiratory syndrome coronavirus 2 | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 4.5 Å | |||||||||
Authors | Farci D / Piano D | |||||||||
Funding support | Poland, 1 items
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Citation | Journal: To Be Published Title: Nucleocapsid protein Sars-Cov2 Authors: Farci D / Piano D | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_16868.map.gz | 240.3 MB | EMDB map data format | |
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Header (meta data) | emd-16868-v30.xml emd-16868.xml | 13.8 KB 13.8 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_16868_fsc.xml | 19.2 KB | Display | FSC data file |
Images | emd_16868.png | 65 KB | ||
Filedesc metadata | emd-16868.cif.gz | 4.1 KB | ||
Others | emd_16868_half_map_1.map.gz emd_16868_half_map_2.map.gz | 473.7 MB 473.7 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-16868 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-16868 | HTTPS FTP |
-Validation report
Summary document | emd_16868_validation.pdf.gz | 1.1 MB | Display | EMDB validaton report |
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Full document | emd_16868_full_validation.pdf.gz | 1.1 MB | Display | |
Data in XML | emd_16868_validation.xml.gz | 26.2 KB | Display | |
Data in CIF | emd_16868_validation.cif.gz | 34.4 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-16868 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-16868 | HTTPS FTP |
-Related structure data
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_16868.map.gz / Format: CCP4 / Size: 512 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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Annotation | map | ||||||||||||||||||||||||||||||||||||
Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.82 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: half A
File | emd_16868_half_map_1.map | ||||||||||||
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Annotation | half A | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: half B
File | emd_16868_half_map_2.map | ||||||||||||
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Annotation | half B | ||||||||||||
Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Nucleocapsid protein Sars-Cov2
Entire | Name: Nucleocapsid protein Sars-Cov2 |
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Components |
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-Supramolecule #1: Nucleocapsid protein Sars-Cov2
Supramolecule | Name: Nucleocapsid protein Sars-Cov2 / 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: 6 |
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Grid | Model: Quantifoil / Support film - Material: CARBON / Support film - topology: CONTINUOUS / Support film - Film thickness: 2 |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277.15 K / Instrument: FEI VITROBOT MARK IV |
-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 QUANTUM (4k x 4k) / Detector mode: COUNTING / Digitization - Frames/image: 1-40 / Number grids imaged: 1 / Number real images: 9013 / Average electron dose: 59.5 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | C2 aperture diameter: 70.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 3.0 µm / Nominal defocus min: 1.5 µm / Nominal magnification: 165000 |
Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
+Image processing
-Atomic model buiding 1
Refinement | Protocol: AB INITIO MODEL |
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