EMD-5375

Single-particle
8.5 Å
EMD-5375
3D View Gallery
Deposition: 20/12/2011
Map released: 24/10/2012
Last modified: 24/10/2012
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links

EMD-5375
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3D volume (map.gz) Experimental metadata (xml)
Map-only Validation report (pdf.gz) Map-only Validation report (cif.gz) Map-only Validation report (xml.gz)
EMICSS annotations (xml)

Direct electron detection yields cryo-EM reconstructions at resolutions beyond .75 Nyquist frequency

EMD-5375

Single-particle
8.5 Å
EMD-5375
3D View Gallery
Deposition: 20/12/2011
Map released: 24/10/2012
Last modified: 24/10/2012
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Concentration: 1 mg/mL
Buffer
pH: 7.6
Details: 50 mM Tris pH 7.6, 25 mM NaCl, 2mM EDTA
Grid
Details: 400 mesh copper grid
Vitrification
Cryogen name: ETHANE
Chamber humidity: 95%
Chamber temperature: 170 K
Instrument: OTHER
Method: Blot for 2 seconds before plunging
Details: Vitrification instrument: Vitrobot
Microscopy [1]
Microscope: JEOL 2010F
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 200 kV
Nominal CS: 2.0 mm
Nominal defocus: 2.0 µm - 5.0 µm
Nominal magnification: 15000.0
Calibrated magnification: 17200.0
Specimen holder model: GATAN LIQUID NITROGEN
Specimen holder details: Side Entry
Alignment procedure: LEGACY (Astigmatism: objective lens astigmatism was corrected at 100,000 times magnification, Electron beam tilt params: )
Temperature
Minimum: 100 K
Average: 100 K
Maximum: 100 K
Image Recording [1]
Detector category: CCD
Detector model: DIRECT ELECTRON DE-12 (4k x 3k)
Sampling interval: 6 µm
Number of real images: 200
Average electron dose per image: 17 e/Å2
Details: Images were collected on a CMOS type detector DE-12 from Direct Electron
Image processing [1]
Final reconstruction
Resolution: 8.5 Å ( BY AUTHOR)
Resolution method: FSC 0.5 CUT-OFF
Number of images used: 7500
Algorithm: OTHER
⌯ Applied Symmetry
Point group: I
Software [1]
Name Version Details
MPSA - -
CTF correction
Details:Each Micrograph
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Icosahedral reconstruction of bacteriophage P22
Details: ::::EMDATABANK.org::::EMD-5375::::
⬡ Geometry
X Y Z
Dimensions 384 384 384
Origin -128 -128 -128
Spacing 384 384 384
Voxel size 3.48 Å 3.48 Å 3.48 Å
Contour list
Primary Level Source
True 0.8 AUTHOR