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- EMDB-43846: Structure of Circularly Permuted 50S Ribosomal Subunit Assembly I... -
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Open data
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Basic information
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Title | Structure of Circularly Permuted 50S Ribosomal Subunit Assembly Intermediate - CP45 Class C2 | ||||||||||||
![]() | Class C2 CP45 50S Ribosomal Intermediate | ||||||||||||
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![]() | 50S subunit / assembly intermediate / RNA-protein complex / ribosome | ||||||||||||
Biological species | ![]() ![]() | ||||||||||||
Method | single particle reconstruction / cryo EM / Resolution: 4.8 Å | ||||||||||||
![]() | Dong X / Sheng K / Williamson JR | ||||||||||||
Funding support | ![]()
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![]() | ![]() Title: Assembly of Bacterial Ribosome with Circularly Permuted rRNA Authors: Dong X / Sheng K / Williamson JR / Gebert L / Aiyer S / Lyumkis D | ||||||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 93.1 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 15.8 KB 15.8 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 12.2 KB | Display | ![]() |
Images | ![]() | 95.5 KB | ||
Filedesc metadata | ![]() | 4.5 KB | ||
Others | ![]() ![]() | 173.8 MB 173.8 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 1 MB | Display | ![]() |
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Full document | ![]() | 1 MB | Display | |
Data in XML | ![]() | 21.3 KB | Display | |
Data in CIF | ![]() | 27.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | C: citing same article ( |
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Links
EMDB pages | ![]() ![]() |
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Map
File | ![]() | ||||||||||||||||||||
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Annotation | Class C2 CP45 50S Ribosomal Intermediate | ||||||||||||||||||||
Voxel size | X=Y=Z: 1.15 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: Class C2 CP45 50S Ribosomal Intermediate - Half Map 2
File | emd_43846_half_map_1.map | ||||||||||||
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Annotation | Class C2 CP45 50S Ribosomal Intermediate - Half Map 2 | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Class C2 CP45 50S Ribosomal Intermediate - Half Map 1
File | emd_43846_half_map_2.map | ||||||||||||
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Annotation | Class C2 CP45 50S Ribosomal Intermediate - Half Map 1 | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : CP45 iSAT 50S ribosomal subunit assembly intermediate
Entire | Name: CP45 iSAT 50S ribosomal subunit assembly intermediate |
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Components |
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-Supramolecule #1: CP45 iSAT 50S ribosomal subunit assembly intermediate
Supramolecule | Name: CP45 iSAT 50S ribosomal subunit assembly intermediate / type: complex / ID: 1 / Parent: 0 |
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Source (natural) | Organism: ![]() ![]() |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.5 Component:
Details: Most of the sucrose was removed by spin concentration. | ||||||||||||||||||
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Grid | Model: Quantifoil R1.2/1.3 / Material: COPPER / Support film - Material: CARBON / Support film - topology: CONTINUOUS / Support film - Film thickness: 2 | ||||||||||||||||||
Vitrification | Cryogen name: ETHANE / Chamber humidity: 90 % / Chamber temperature: 298 K / Instrument: FEI VITROBOT MARK IV / Details: 3 microliter of the sample was added.. | ||||||||||||||||||
Details | The in vitro assembled large ribosomal subunit was purified by sucrose gradient and was spin-concentrated in a 100 kDa MW-cutoff filter. |
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Electron microscopy
Microscope | FEI TALOS ARCTICA |
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Details | In order to account for highly preferred orientation of the specimen, data were acquired using tilts ranging at -20 degrees. |
Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Number grids imaged: 1 / Number real images: 1599 / Average exposure time: 5.0 sec. / Average electron dose: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 200 kV / Electron source: ![]() |
Electron optics | C2 aperture diameter: 50.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.0 µm / Nominal magnification: 36000 |
Sample stage | Cooling holder cryogen: NITROGEN |
Experimental equipment | ![]() Model: Talos Arctica / Image courtesy: FEI Company |