EMD-2317

Single-particle
22.0 Å
EMD-2317 Deposition: 20/02/2013
Map released: 09/10/2013
Last modified: 17/02/2016
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links

EMD-2317

Single particle cryo-microscopy reconstruction of the isolated Manduca sexta V1 domain in complex with subunit C

EMD-2317

Single-particle
22.0 Å
EMD-2317 Deposition: 20/02/2013
Map released: 09/10/2013
Last modified: 17/02/2016
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: 8.1
Details: 150mM NaCl, 20mM Tris-HCL, 0.01% C12E10
Staining
Type: NEGATIVE
Details: Negative stain data was collected using 1% w/v uranyl acetate for 1 minute.
Grid
Details: UV glow discharged grids, 400 mesh
Vitrification
Cryogen name: ETHANE
Chamber humidity: 100%
Chamber temperature: 120 K
Instrument: FEI VITROBOT MARK IV
Method: Grids were blotted for 6 seconds with a 6 second drain time
Microscopy [1]
Microscope: FEI TECNAI F20
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 200 kV
Nominal CS: 2.0 mm
Nominal defocus: 0.001 µm - 0.004 µm
Nominal magnification: 50000.0
Calibrated magnification: 69000.0
Specimen holder model: GATAN LIQUID NITROGEN
Specimen holder details: Nitrogen cooled 3350 holder
Alignment procedure: LEGACY (Astigmatism: Astigmatism corrected for each image in focus mode at 100,000 times magnification, Electron beam tilt params: )
Details: FEI Low dose mode
Temperature
Minimum: 90 K
Average: 100 K
Maximum: 110 K
Image Recording [1]
Detector category: CCD
Detector model: GENERIC GATAN (4k x 4k)
Number of real images: 232
Average electron dose per image: 16 e/Å2
Details: All collected on Gatan 4K x 4K CCD
Image processing [1]
Details: The particles were handpicked in BOXER
Final reconstruction
Resolution: 22.0 Å ( BY AUTHOR)
Resolution method: OTHER
Number of images used: 10746
Algorithm: OTHER
Details: Maximum likelihood in Relion using the MLF3D protocol
Applied Symmetry
Point group: C1
Software [1]
Name Version Details
Relion - -
Final angle assignment
Details: Relion angular sampling 10 degrees
CTF correction
Details:Relion
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: M. Sexta V1 plus C
Details: ::::EMDATABANK.org::::EMD-2317::::
Geometry
X Y Z
Dimensions 76 76 76
Origin -38 -38 -38
Spacing 76 76 76
Voxel size 4.36 Å 4.36 Å 4.36 Å
Contour list
Primary Level Source
True 2.0 AUTHOR