+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-33078 | |||||||||
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Title | ribosome translation conformation 2 | |||||||||
Map data | ||||||||||
Sample |
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Biological species | Rattus (rat) | |||||||||
Method | subtomogram averaging / cryo EM / Resolution: 11.6 Å | |||||||||
Authors | Jiang W / Guo Q | |||||||||
Funding support | 1 items
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Citation | Journal: Nucleic Acids Res. / Year: 2022 Title: A transformation clustering algorithm and its application in polyribosomes structural profiling. Authors: Jiang W / Guo Q | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_33078.map.gz | 26.5 MB | EMDB map data format | |
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Header (meta data) | emd-33078-v30.xml emd-33078.xml | 10.9 KB 10.9 KB | Display Display | EMDB header |
Images | emd_33078.png | 65.5 KB | ||
Others | emd_33078_half_map_1.map.gz emd_33078_half_map_2.map.gz | 15.1 MB 15.1 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-33078 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-33078 | HTTPS FTP |
-Validation report
Summary document | emd_33078_validation.pdf.gz | 692.4 KB | Display | EMDB validaton report |
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Full document | emd_33078_full_validation.pdf.gz | 692 KB | Display | |
Data in XML | emd_33078_validation.xml.gz | 10.7 KB | Display | |
Data in CIF | emd_33078_validation.cif.gz | 12.6 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-33078 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-33078 | HTTPS FTP |
-Related structure data
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_33078.map.gz / Format: CCP4 / Size: 29.6 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: 3.42 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #1
File | emd_33078_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #2
File | emd_33078_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : ribosome translation conformation 2
Entire | Name: ribosome translation conformation 2 |
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Components |
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-Supramolecule #1: ribosome translation conformation 2
Supramolecule | Name: ribosome translation conformation 2 / type: complex / Chimera: Yes / ID: 1 / Parent: 0 |
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Source (natural) | Organism: Rattus (rat) |
-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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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 1.8 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: OTHER / Imaging mode: BRIGHT FIELD / Nominal defocus max: 6.0 µm / Nominal defocus min: 3.0 µm |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
-Image processing
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 11.6 Å / Resolution method: FSC 0.143 CUT-OFF / Number subtomograms used: 3689 |
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Extraction | Number tomograms: 18 / Number images used: 11547 |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |