EMD-5494

Single-particle
11.1 Å
EMD-5494
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Deposition: 10/09/2012
Map released: 24/10/2012
Last modified: 21/11/2012
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EMD-5494
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EMICSS annotations (xml)

Cryo-EM structure of short shafted adenovirus type 5 complexed with factor X

EMD-5494

Single-particle
11.1 Å
EMD-5494
3D View Gallery
Deposition: 10/09/2012
Map released: 24/10/2012
Last modified: 21/11/2012
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Concentration: 0.6 mg/mL
Buffer
pH: 7.6
Details: 50mM Tris, 150mM NaCl, 2mM CaCl2, 2mM MgCl2
Grid
Details: Quantifoil R2/4 holey carbon grids, glow discharged
Vitrification
Cryogen name: ETHANE
Chamber humidity: 30%
Chamber temperature: 90 K
Instrument: HOMEMADE PLUNGER
Method: Blot for 6 seconds before plunging
Microscopy [1]
Microscope: FEI POLARA 300
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 300 kV
Nominal CS: 2.26 mm
Nominal defocus: 0.5 µm - 2.1 µm
Nominal magnification: 310000.0
Calibrated magnification: 400000.0
Specimen holder model: OTHER
Alignment procedure: LEGACY (Astigmatism: Objective lens astigmatism was corrected at 300,000 times magnification, Electron beam tilt params: 0)
Details: Low dose
Temperature
Average: 90 K
Image Recording [1]
Detector category: FILM
Detector model: GATAN ULTRASCAN 4000 (4k x 4k)
Scanner: OTHER
Sampling interval: 15 µm
Number of real images: 1101
Average electron dose per image: 20 e/Å2
Bits per pixel: 16.0
Image processing [1]
Details: The particles were selected with an in-house script and processed using Frealign
Final reconstruction
Resolution: 11.1 Å ( BY AUTHOR)
Resolution method: FSC 0.5 CUT-OFF
Number of images used: 520
Algorithm: OTHER
Details:
⌯ Applied Symmetry
Point group: I
Software [1]
Name Version Details
Frealign - -
CTF correction
Details:Each particle
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Reconstruction of Ad5 with short fiber in complex with factor X
Details: ::::EMDATABANK.org::::EMD-5494::::
⬡ Geometry
X Y Z
Dimensions 640 640 640
Origin -320 -320 -320
Spacing 640 640 640
Voxel size 2.25 Å 2.25 Å 2.25 Å
Contour list
Primary Level Source
True 0.995 AUTHOR