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Open data
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Basic information
Entry | Database: EMDB / ID: EMD-10736 | |||||||||
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Title | Lumazine Synthase | |||||||||
![]() | Reconstruction of Lumazine Synthase, sharpened and filtered at 2 angstroms | |||||||||
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Biological species | ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.0 Å | |||||||||
![]() | Bhella D / Streetley J / Clarke M / Cowton V / Patel A / Bammes B / Hosogi N | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Cryo-electron microscopy: an introduction to the technique, and considerations when working to establish a national facility. Authors: David Bhella / ![]() | |||||||||
History |
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Structure visualization
Movie |
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Structure viewer | EM map: ![]() ![]() ![]() |
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 227.1 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 16 KB 16 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 14.2 KB | Display | ![]() |
Images | ![]() | 251.7 KB | ||
Masks | ![]() | 244.1 MB | ![]() | |
Others | ![]() ![]() | 193.5 MB 193.5 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 541.2 KB | Display | ![]() |
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Full document | ![]() | 540.3 KB | Display | |
Data in XML | ![]() | 20.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data | |
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EM raw data | ![]() Data #1: Frame aligned multi-frame movies of Lumazine Synthase imaged on a CryoARM300 and DE64 [micrographs - multiframe]) ![]() Data #1: Frame aligned multi-frame movies of Lumazine Synthase imaged on a CryoARM300 and DE64 [micrographs - multiframe]) |
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Links
EMDB pages | ![]() ![]() |
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Map
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Annotation | Reconstruction of Lumazine Synthase, sharpened and filtered at 2 angstroms | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.597 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Mask #1
File | ![]() | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: Half map 1
File | emd_10736_half_map_1.map | ||||||||||||
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Annotation | Half map 1 | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Half map 2
File | emd_10736_half_map_2.map | ||||||||||||
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Annotation | Half map 2 | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : Icosahedral complex of Lumazine Synthase
Entire | Name: Icosahedral complex of Lumazine Synthase |
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Components |
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-Supramolecule #1: Icosahedral complex of Lumazine Synthase
Supramolecule | Name: Icosahedral complex of Lumazine Synthase / type: complex / ID: 1 / Parent: 0 |
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Source (natural) | Organism: ![]() ![]() |
Recombinant expression | Organism: ![]() ![]() |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Concentration | 3 mg/mL |
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Buffer | pH: 7.2 |
Grid | Model: C-flat-1.2/1.3 4C / Material: COPPER / Mesh: 400 / Support film - Material: CARBON / Support film - topology: HOLEY ARRAY / Pretreatment - Type: GLOW DISCHARGE |
Vitrification | Cryogen name: ETHANE / Instrument: FEI VITROBOT MARK IV |
Details | Purified by immobilised metal affinity chromatography. |
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Electron microscopy
Microscope | JEOL CRYO ARM 300 |
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Specialist optics | Energy filter - Name: In-column Omega Filter / Energy filter - Slit width: 20 eV |
Image recording | Film or detector model: DIRECT ELECTRON DE-64 (8k x 8k) / Detector mode: COUNTING / Digitization - Dimensions - Width: 4096 pixel / Digitization - Dimensions - Height: 4096 pixel / Digitization - Sampling interval: 13.0 µm / Digitization - Frames/image: 1-41 / Number grids imaged: 1 / Number real images: 1199 / Average exposure time: 10.0 sec. / Average electron dose: 1.66 e/Å2 Details: Images were acquired at 141 FPS with 2 x binning and electron counting. A total of 41 summed frames were written out. |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | C2 aperture diameter: 100.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal magnification: 200000 |
Sample stage | Specimen holder model: JEOL CRYOSPECPORTER / Cooling holder cryogen: NITROGEN |