EMD-2660

Single-particle
3.2 Å
EMD-2660
3D View Gallery
Deposition: 22/05/2014
Map released: 18/06/2014
Last modified: 15/07/2015
Overview 3D View Sample Experiment Validation Additional data Links
Overview 3D View Sample Experiment Validation Additional data Links

EMD-2660
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3D volume (map.gz) Experimental metadata (xml) Experimental Metadata (cif.gz)
Map-only Validation report (pdf.gz) Map-only Validation report (cif.gz) Map-only Validation report (xml.gz)
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EMICSS annotations (xml)

Cryo-EM structure of the Plasmodium falciparum 80S ribosome bound to the anti-protozoan drug emetine

EMD-2660

Single-particle
3.2 Å
EMD-2660
3D View Gallery
Deposition: 22/05/2014
Map released: 18/06/2014
Last modified: 15/07/2015
Overview 3D View Sample Experiment Validation Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Concentration: 0.6 mg/mL
Buffer
pH: 7.4
Details: 20 mM Hepes pH7.4, 40 mM KCH3COO, 10 mM NH4CH3COO, 10 mM Mg(CH3COO)2 and 5 mM 2-mecaptoethanol
Staining
Type: NEGATIVE
Details: Cryo-EM
Grid
Details: 30 s on glow-discharged holey carbon grids (Quantifoil R2/2), onto which a home-made continuous carbon film
Vitrification
Cryogen name: ETHANE
Chamber humidity: 100%
Chamber temperature: 90 K
Instrument: FEI VITROBOT MARK IV
Method: Blot 2.5 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 mm
Nominal defocus: 0.8 µm - 3.8 µm
Nominal magnification: 78000.0
Calibrated magnification: 104748.0
Specimen holder model: GATAN LIQUID NITROGEN
Alignment procedure: LEGACY (Astigmatism: Objective lens astigmatism was corrected at 78,000 times magnification, Electron beam tilt params: )
Temperature
Minimum: 80 K
Average: 85 K
Maximum: 90 K
Image Recording [1]
Detector category: CCD
Detector model: FEI FALCON II (4k x 4k)
Sampling interval: 14 µm
Number of real images: 1083
Average electron dose per image: 20 e/Å2
Details: Use a newly developed statistical movie processing approach to compensate for beam-induced movement.
Image processing [1]
Details: Use a newly developed statistical movie processing approach to compensate for beam-induced movement.
Final reconstruction
Resolution: 3.2 Å ( BY AUTHOR)
Resolution method: OTHER
Number of images used: 105247
Details: Use a newly developed statistical movie processing approach to compensate for beam-induced movement.
⌯ Applied Symmetry
Point group: C1
Software [1]
Name Version Details
CTFFIND3, RELION - -
CTF correction
Details: Each particle
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Cryo-EM structure of the Plasmodium falciparum 80S ribosome bound to the anti-protozoan drug emetine
Details: ::::EMDATABANK.org::::EMD-2660::::
⬡ Geometry
X Y Z
Origin 0 0 0
Dimensions (px) 360 360 360
Dimensions (Å) 482.40002 482.40002 482.40002
Voxel size (Å) 1.34 1.34 1.34
Contour list
Primary Level Source
True 0.18 AUTHOR