EMD-2318
Single particle cryo-microscopy reconstruction of the isolated Manduca sexta V1 domain
EMD-2318
Single-particle20.0 Å
Deposition: 20/02/2013
Map released: 09/10/2013
Last modified: 17/02/2016
Concentration: 1
mg/mL
Buffer
pH: 8.1
Details: 150mM NaCl, 20mM Tris-HCL, 0.01% C12E10
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.
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
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
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 - 0.0035 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
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 - 0.0035 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
Average: 100 K
Maximum: 110 K
Image Recording
[1]
Detector category:
CCD
Detector model: GENERIC GATAN (4k x 4k)
Average electron dose per image: 16 e/Å2
Details: All collected on Gatan 4K x 4K CCD
Detector model: GENERIC GATAN (4k x 4k)
Average electron dose per image: 16 e/Å2
Details: All collected on Gatan 4K x 4K CCD
Details: The particles were handpicked in BOXER
Final
reconstruction
⦩ Final angle assignment
Details: Relion angular sampling 10 degrees
CTF correction
Details:Relion
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: V1 domain without the C subunit bound
Details: ::::EMDATABANK.org::::EMD-2318::::
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: V1 domain without the C subunit bound
Details: ::::EMDATABANK.org::::EMD-2318::::
⬡ Geometry
X | Y | Z | |
---|---|---|---|
Dimensions | 60 | 60 | 60 |
Origin | -30 | -30 | -30 |
Spacing | 60 | 60 | 60 |
Voxel size | 4.36 Å | 4.36 Å | 4.36 Å |
Contour list
Primary | Level | Source |
---|---|---|
True | 1.2 | AUTHOR |