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Yorodumi- EMDB-29807: 70S global refined map of WT E.coli ribosome complexed with A-sit... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-29807 | |||||||||
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Title | 70S global refined map of WT E.coli ribosome complexed with A-site 3-aminopyridine-4-carboxylic acid charged tRNAPhe | |||||||||
Map data | 70S global refined map | |||||||||
Sample |
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Biological species | Escherichia coli (E. coli) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.09 Å | |||||||||
Authors | Majumdar C / Cate JHD | |||||||||
Funding support | United States, 1 items
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Citation | Journal: To Be Published Title: Structure of WT E.coli ribosome 50S subunit with complexed with mRNA, P-site fMet-NH-tRNAfMet and A-site 3-aminopyridine-4-carboxylic acid charged NH-tRNAPhe Authors: Majumdar C / Cate JHD | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_29807.map.gz | 55.6 MB | EMDB map data format | |
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Header (meta data) | emd-29807-v30.xml emd-29807.xml | 16.9 KB 16.9 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_29807_fsc.xml | 17.4 KB | Display | FSC data file |
Images | emd_29807.png | 82.8 KB | ||
Others | emd_29807_half_map_1.map.gz emd_29807_half_map_2.map.gz | 372.8 MB 372.8 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-29807 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-29807 | HTTPS FTP |
-Validation report
Summary document | emd_29807_validation.pdf.gz | 867.2 KB | Display | EMDB validaton report |
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Full document | emd_29807_full_validation.pdf.gz | 866.8 KB | Display | |
Data in XML | emd_29807_validation.xml.gz | 25.4 KB | Display | |
Data in CIF | emd_29807_validation.cif.gz | 34 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-29807 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-29807 | HTTPS FTP |
-Related structure data
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_29807.map.gz / Format: CCP4 / Size: 465.5 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Annotation | 70S global refined map | ||||||||||||||||||||
Voxel size | X=Y=Z: 0.824 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: 70S global refinement half map
File | emd_29807_half_map_1.map | ||||||||||||
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Annotation | 70S global refinement half map | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: 70S global refinement half map
File | emd_29807_half_map_2.map | ||||||||||||
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Annotation | 70S global refinement half map | ||||||||||||
Projections & Slices |
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Density Histograms |
-Sample components
-Entire : 70S E.coli ribosome
Entire | Name: 70S E.coli ribosome |
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Components |
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-Supramolecule #1: 70S E.coli ribosome
Supramolecule | Name: 70S E.coli ribosome / type: complex / ID: 1 / Chimera: Yes / Parent: 0 / Macromolecule list: #1-#34 |
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Source (natural) | Organism: Escherichia coli (E. coli) / Strain: MRE600 |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.5 |
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Grid | Model: Quantifoil R1.2/1.3 / Material: GOLD / Mesh: 300 / Support film - Material: CARBON / Support film - topology: CONTINUOUS / Support film - Film thickness: 0.2 nm / Pretreatment - Type: GLOW DISCHARGE |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK IV |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 40.0 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: 1.5 µm / Nominal defocus min: 0.5 µm |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |