EMD-9080
Single-Molecule 3D Image of Human Plasma Intermediate-Density Lipoprotein (No. 12)
EMD-9080
Tomography100.1 Å
Deposition: 03/09/2018
Map released: 02/01/2019
Last modified: 25/12/2019
Concentration: 2
mg/mL
Details: Human IDLs were isolated from the plasma of a healthy individual by non-equilibrium density gradient ultracentrifugation
Details: Human IDLs were isolated from the plasma of a healthy individual by non-equilibrium density gradient ultracentrifugation
Buffer
pH: 7.0
Details: Dulbecco's phosphate buffered saline (DPBS)
Details: Dulbecco's phosphate buffered saline (DPBS)
Grid
Vitrification
Sectioning
Details: NO SECTIONING
Microscope: ZEISS LIBRA120PLUS
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: LAB6
Acceleration voltage: 120 kV
Nominal CS: 2.2 mm
Nominal magnification: 50000.0
Alignment procedure: BASIC
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: LAB6
Acceleration voltage: 120 kV
Nominal CS: 2.2 mm
Nominal magnification: 50000.0
Alignment procedure: BASIC
Specialist optics
Energy filter
Image Recording
[1]
Detector model:
GATAN ULTRASCAN 4000 (4k x 4k)
Dimensions: 4096 pixel x 4096 pixel
Average electron dose per image: 1.37 e/Å2
Dimensions: 4096 pixel x 4096 pixel
Average electron dose per image: 1.37 e/Å2
Details: X-ray speckles in images were removed before CTF correction.
Final
reconstruction
Resolution: 100.1
Å
(
BY AUTHOR)
Resolution method: FSC 0.5 CUT-OFF
Number of images used: 35
Algorithm: FOURIER SPACE
Details: The 3D reconstruction was performed by using individual-particle electron tomography (IPET). The obtained 3D map was low-pass filtered to 8 nm.
Resolution method: FSC 0.5 CUT-OFF
Number of images used: 35
Algorithm: FOURIER SPACE
Details: The 3D reconstruction was performed by using individual-particle electron tomography (IPET). The obtained 3D map was low-pass filtered to 8 nm.
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
⬡ Geometry
X | Y | Z | |
---|---|---|---|
Dimensions | 192 | 192 | 192 |
Origin | -96 | -96 | -96 |
Spacing | 192 | 192 | 192 |
Voxel size | 2.4 Å | 2.4 Å | 2.4 Å |
Contour list
Primary | Level | Source |
---|---|---|
True | - | AUTHOR |