EMD-2479

Single-particle
22.0 Å
EMD-2479
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Deposition: 26/09/2013
Map released: 30/10/2013
Last modified: 30/10/2013
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EMD-2479
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EMICSS annotations (xml)

Electron microscopy structure of the Drosophila origin recognition complex

EMD-2479

Single-particle
22.0 Å
EMD-2479
3D View Gallery
Deposition: 26/09/2013
Map released: 30/10/2013
Last modified: 30/10/2013
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Concentration: 0.0116 mg/mL
Buffer
pH: 7.8
Details: 50mM Tris-HCL pH 7.8, 300mM KCl, 5mM MgCl2, 1mM ATPgS
Staining
Type: NEGATIVE
Details: Grids with adsorbed protein were floated on 4 drops of 2% uranyl formate for 10 seconds each
Grid
Details: 400 mesh copper grid with continuous carbon support
Vitrification
Cryogen name: NONE
Instrument: OTHER
Microscopy [1]
Microscope: FEI TECNAI 12
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: LAB6
Acceleration voltage: 120 kV
Nominal CS: 6.3 mm
Nominal defocus: 0.4 µm - 1.2 µm
Nominal magnification: 49000.0
Specimen holder model: SIDE ENTRY, EUCENTRIC
Minimum tilt angle: 0
Maximum tilt angle: 30
Temperature
Average: 297 K
Image Recording [1]
Detector category: CCD
Detector model: TVIPS TEMCAM-F416 (4k x 4k)
Average electron dose per image: 25 e/Å2
Image processing [1]
Details: Particles were selected using the automated particle selection software DoG Picker. 3D reconstructions were performed with SPIDER.
Final reconstruction
Resolution: 22.0 Å ( BY AUTHOR)
Resolution method: FSC 0.5 CUT-OFF
Number of images used: 70000
Algorithm: OTHER
Details: Particles were automatically selected with DoG Picker. The contrast transfer function was estimated with CTFFIND/CTFTILT and phases flipped with SPIDER. Projection-matching refinement was performed with SPIDER using a previously determined 3D reconstruction of Drosophila ORC as a starting model.
⌯ Applied Symmetry
Point group: C1
Software [1]
Name Version Details
SPIDER - -
CTF correction
Details:Each micrograph for untilted, each particle for tilted
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Reconstruction of Drosophila ORC in presence of 1mM ATPgS
Details: ::::EMDATABANK.org::::EMD-2479::::
⬡ Geometry
X Y Z
Dimensions 80 80 80
Origin -40 -40 -40
Spacing 80 80 80
Voxel size 4.36 Å 4.36 Å 4.36 Å
Contour list
Primary Level Source
True 4.5 AUTHOR