|Entry||Database: EMDB / ID: 1333|
|Title||The structures of bacteriophages K1E and K1-5 explain processive degradation of polysaccharide capsules and evolution of new host specificities.|
|Sample||Sixfold averaged tail of bacteriophage K1E|
|Source||Enterobacteria phage K1E / virus / phage K1E tail|
|Map data||Sixfold averaged tail of bacteriophage K1E|
|Method||single particle reconstruction, at 16.4 Å resolution|
|Authors||Leiman PG / Battisti AJ / Bowman VD / Stummeyer K / Muhlenhoff M / Gerardy-Schahn R / Scholl D / Molineux IJ|
|Citation||J. Mol. Biol., 2007, 371, 836-849|
J. Mol. Biol., 2007, 371, 836-849 Yorodumi Papers
|Date||Deposition: Mar 6, 2007 / Header (metadata) release: Mar 6, 2007 / Map release: Jul 18, 2007 / Last update: Oct 24, 2012|
Downloads & links
|File||emd_1333.map.gz (map file in CCP4 format, 21297 KB)|
|Projections & slices|
Images are generated by Spider package.
|Voxel size||X=Y=Z: 2.98 Å|
CCP4 map header:
-Entire Sixfold averaged tail of bacteriophage K1E
|Entire||Name: Sixfold averaged tail of bacteriophage K1E / Number of components: 1|
|Mass||Theoretical: 8 MDa / Experimental: 8 MDa / Measured by: Primary sequence|
-Component #1: virus, Enterobacteria phage K1E
|Virus||Name: Enterobacteria phage K1E / a.k.a: phage K1E tail / Class: VIRION / Details: sixfold averaged / Empty: No / Enveloped: No / Isolate: SPECIES|
|Mass||Theoretical: 8 MDa / Experimental: 8 MDa|
|Species||Species: Enterobacteria phage K1E / virus / phage K1E tail|
|Source (natural)||Host Species: Escherichia coli / bacteria / エシェリキア・コリ, 大腸菌 / |
Host category: BACTERIA(EUBACTERIA)
|Sample solution||Specimen conc.: 1 mg/ml|
Buffer solution: 50 mM Tris HCl pH 7.5, 100 mM NaCl, 8 mM MgSO4
|Support film||quantifoil grid|
|Vitrification||Instrument: FEI VITROBOT / Cryogen name: ETHANE / Temperature: 300 K / Humidity: 80 % / Details: Vitrification instrument: Vitrobot|
-Electron microscopy imaging
|Imaging||Microscope: FEI/PHILIPS CM300FEG/T / Date: May 10, 2005|
|Electron gun||Electron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Electron dose: 25 e/Å2 / Illumination mode: SPOT SCAN|
|Lens||Magnification: 45000 X (nominal), 47000 X (calibrated) / Cs: 2 mm / Imaging mode: BRIGHT FIELD / Defocus: 700 - 3300 nm|
|Specimen Holder||Holder: Side entry liquid nitrogen-cooled cryo specimen holder|
Model: GATAN LIQUID NITROGEN / Temperature: 100 K
|Camera||Detector: KODAK SO-163 FILM|
|Image acquisition||Number of digital images: 122 / Scanner: ZEISS SCAI / Sampling size: 7 microns / Bit depth: 12|
|Processing||Method: single particle reconstruction / Number of projections: 6105 / Applied symmetry: C6 (6 fold cyclic)|
|3D reconstruction||Algorithm: weighted back-projection / Software: Spider / CTF correction: Each particle / Resolution: 16.4 Å / Resolution method: FSC at 0.4 cut-off|
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- Jacques Dubochet (University of Lausanne, Switzerland) is a pioneer of ice-embedding method of EM specimen (as known as cryo-EM), Most of 3DEM structures in EMDB and PDB are obtained using his method.
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External links: The 2017 Nobel Prize in Chemistry - Press Release
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