EMD-2106

Single-particle
10.9 Å
EMD-2106
3D View Gallery
Deposition: 25/05/2012
Map released: 14/08/2013
Last modified: 26/03/2014
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Overview 3D View Sample Experiment Validation Volume Browser Additional data Links

EMD-2106
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3D volume (map.gz) Experimental metadata (xml)
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EMICSS annotations (xml)

HRV2 empty native capsid

EMD-2106

Single-particle
10.9 Å
EMD-2106
3D View Gallery
Deposition: 25/05/2012
Map released: 14/08/2013
Last modified: 26/03/2014
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Buffer
pH: 7.4
Details: 50 mM sodium borate
Staining
Type: NEGATIVE
Details: Using a Leica EM Grid Plunger, sample was applied per grid in a humidified chamber, left for 30 s, blotted for 0.8 s and plunge-frozen
Grid
Details: R 1.2/1.3 Quantifoil grids
Vitrification
Cryogen name: ETHANE
Chamber humidity: 80%
Chamber temperature: 99 K
Instrument: LEICA EM GP
Microscopy [1]
Microscope: FEI TECNAI F30
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 300 kV
Nominal CS: 2.00 mm
Nominal defocus: 0.8 µm - 3.5 µm
Nominal magnification: 71949.0
Calibrated magnification: 79372.0
Specimen holder model: PHILIPS ROTATION HOLDER
Specimen holder details: Eucentric
Image Recording [1]
Detector category: CCD
Detector model: GATAN ULTRASCAN 4000 (4k x 4k)
Sampling interval: 15 µm
Number of real images: 433
Average electron dose per image: 20 e/Å2
Bits per pixel: 32.0
Image processing [1]
Final reconstruction
Resolution: 10.9 Å ( BY AUTHOR)
Resolution method: FSC 0.5 CUT-OFF
Number of images used: 2223
Algorithm: OTHER
⌯ Applied Symmetry
Point group: I
Software [1]
Name Version Details
Xmipp - -
CTF correction
Details:Phase flipping & amplitude decay correction
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Reconstruction of HRV2 empty native particle
Details: ::::EMDATABANK.org::::EMD-2106::::
⬡ Geometry
X Y Z
Dimensions 244 244 244
Origin 0 0 0
Spacing 244 244 244
Voxel size 1.89 Å 1.89 Å 1.89 Å
Contour list
Primary Level Source
True 1.32 AUTHOR