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Yorodumi- EMDB-39712: 1.4A Tobacco Mosaic Virus (CryoSPARC processing from Falcon 4 data) -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-39712 | |||||||||
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Title | 1.4A Tobacco Mosaic Virus (CryoSPARC processing from Falcon 4 data) | |||||||||
Map data | TMV CryoSPARC Helical Refinement sharpened, symmeterised map | |||||||||
Sample |
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Keywords | Helical reconstruction / TMV / Virus | |||||||||
Biological species | Tobacco mosaic virus | |||||||||
Method | helical reconstruction / cryo EM / Resolution: 1.43 Å | |||||||||
Authors | Burton-Smith RN / Murata K | |||||||||
Funding support | 1 items
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Citation | Journal: To Be Published Title: 1.4A Tobacco Mosaic Virus (CryoSPARC processing from Falcon 4 data) (to be published) 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_39712.map.gz | 408.3 MB | EMDB map data format | |
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Header (meta data) | emd-39712-v30.xml emd-39712.xml | 18.8 KB 18.8 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_39712_fsc.xml | 25.2 KB | Display | FSC data file |
Images | emd_39712.png | 135.7 KB | ||
Masks | emd_39712_msk_1.map | 1.7 GB | Mask map | |
Filedesc metadata | emd-39712.cif.gz | 4.1 KB | ||
Others | emd_39712_additional_1.map.gz emd_39712_additional_2.map.gz emd_39712_additional_3.map.gz emd_39712_half_map_1.map.gz emd_39712_half_map_2.map.gz | 1.6 GB 854.8 MB 405.6 MB 1.6 GB 1.6 GB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-39712 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-39712 | HTTPS FTP |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_39712.map.gz / Format: CCP4 / Size: 1.7 GB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Annotation | TMV CryoSPARC Helical Refinement sharpened, symmeterised map | ||||||||||||||||||||
Voxel size | X=Y=Z: 0.46 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Mask #1
File | emd_39712_msk_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Additional map: TMV CryoSPARC Helical Refinement sharpened, UNsymmeterised map
File | emd_39712_additional_1.map | ||||||||||||
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Annotation | TMV CryoSPARC Helical Refinement sharpened, UNsymmeterised map | ||||||||||||
Projections & Slices |
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Density Histograms |
-Additional map: TMV CryoSPARC Helical Refinement UNsharpened, UNsymmeterised map
File | emd_39712_additional_2.map | ||||||||||||
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Annotation | TMV CryoSPARC Helical Refinement UNsharpened, UNsymmeterised map | ||||||||||||
Projections & Slices |
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Density Histograms |
-Additional map: TMV CryoSPARC Helical Refinement UNsharpened, symmeterised map
File | emd_39712_additional_3.map | ||||||||||||
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Annotation | TMV CryoSPARC Helical Refinement UNsharpened, symmeterised map | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: TMV CryoSPARC Helical Refinement half map 2 (B)
File | emd_39712_half_map_1.map | ||||||||||||
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Annotation | TMV CryoSPARC Helical Refinement half map 2 (B) | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: TMV CryoSPARC Helical Refinement half map 1 (A)
File | emd_39712_half_map_2.map | ||||||||||||
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Annotation | TMV CryoSPARC Helical Refinement half map 1 (A) | ||||||||||||
Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Tobacco mosaic virus
Entire | Name: Tobacco mosaic virus |
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Components |
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-Supramolecule #1: Tobacco mosaic virus
Supramolecule | Name: Tobacco mosaic virus / type: virus / ID: 1 / Parent: 0 / NCBI-ID: 12242 / Sci species name: Tobacco mosaic virus / Virus type: VIRION / Virus isolate: OTHER / Virus enveloped: No / Virus empty: Yes |
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-Experimental details
-Structure determination
Method | cryo EM |
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Processing | helical reconstruction |
Aggregation state | helical array |
-Sample preparation
Buffer | pH: 7 |
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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: 1.6 µm / Nominal defocus min: 0.8 µm / Nominal magnification: 130000 |
Specialist optics | Energy filter - Name: TFS Selectris X / Energy filter - Slit width: 10 eV |
Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN |
Image recording | Film or detector model: FEI FALCON IV (4k x 4k) / Digitization - Dimensions - Width: 8192 pixel / Digitization - Dimensions - Height: 8192 pixel / Average electron dose: 40.0 e/Å2 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |