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Yorodumi- EMDB-37183: Nodavirus (Fourier cropped EMPIAR-10203) for single-frame PASR co... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-37183 | |||||||||
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Title | Nodavirus (Fourier cropped EMPIAR-10203) for single-frame PASR comparison | |||||||||
Map data | Post-processed Fourier cropped Nodavirus | |||||||||
Sample |
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Keywords | PASR / post-acquisition super resolution / reprocessing / virus / Nodavirus | |||||||||
Biological species | Macrobrachium rosenbergii nodavirus | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 4.24 Å | |||||||||
Authors | Burton-Smith RN / Murata K | |||||||||
Funding support | Japan, 1 items
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Citation | Journal: To Be Published Title: Nodavirus (Fourier cropped EMPIAR-10203) for single-frame PASR comparison Authors: Burton-Smith RN / Murata K | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_37183.map.gz | 70 MB | EMDB map data format | |
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Header (meta data) | emd-37183-v30.xml emd-37183.xml | 11.3 KB 11.3 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_37183_fsc.xml | 9.6 KB | Display | FSC data file |
Images | emd_37183.png | 148.1 KB | ||
Filedesc metadata | emd-37183.cif.gz | 3.6 KB | ||
Others | emd_37183_half_map_1.map.gz emd_37183_half_map_2.map.gz | 58.8 MB 58.8 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-37183 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-37183 | HTTPS FTP |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_37183.map.gz / Format: CCP4 / Size: 75.1 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Annotation | Post-processed Fourier cropped Nodavirus | ||||||||||||||||||||
Voxel size | X=Y=Z: 2.12 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: Half-map 2 Fourier cropped Nodavirus
File | emd_37183_half_map_1.map | ||||||||||||
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Annotation | Half-map 2 Fourier cropped Nodavirus | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Half-map 1 Fourier cropped Nodavirus
File | emd_37183_half_map_2.map | ||||||||||||
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Annotation | Half-map 1 Fourier cropped Nodavirus | ||||||||||||
Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Macrobrachium rosenbergii nodavirus
Entire | Name: Macrobrachium rosenbergii nodavirus |
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Components |
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-Supramolecule #1: Macrobrachium rosenbergii nodavirus
Supramolecule | Name: Macrobrachium rosenbergii nodavirus / type: virus / ID: 1 / Parent: 0 / Details: Nodavirus / NCBI-ID: 222557 / Sci species name: Macrobrachium rosenbergii nodavirus / Virus type: VIRUS-LIKE PARTICLE / Virus isolate: OTHER / Virus enveloped: No / Virus empty: No |
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-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.4 |
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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Cs: 2.7 mm / Nominal defocus max: 2.5 µm / Nominal defocus min: 1.0 µm |
Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 36.0 e/Å2 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |