EMD-3193
Helical reconstruction of amphiphysin N-BAR with a membrane tube radius of 156 Angstrom by cryo-electron microscopy
EMD-3193
Helical reconstruction11.2 Å
Deposition: 05/10/2015Map released: 28/10/2015
Last modified: 17/02/2016
Concentration: 0.6
mg/mL
Details: 20 uM of Amph N-BAR protein was incubated with 720 uM liposomes at RT.
Details: 20 uM of Amph N-BAR protein was incubated with 720 uM liposomes at RT.
Buffer
pH: 7.4
Details: 20 mM Hepes, 500 mM NaCl, 1 mM EDTA, 1 mM DTT
Details: 20 mM Hepes, 500 mM NaCl, 1 mM EDTA, 1 mM DTT
Grid
Details: Quantifoil R 2/1, Cu, 300 mesh grids
Vitrification
Microscope: FEI POLARA 300
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 300 kV
Nominal CS: 2.0 mm
Nominal defocus: 0.5 µm - 3.2 µm
Nominal magnification: 62000.0
Specimen holder model: OTHER
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 300 kV
Nominal CS: 2.0 mm
Nominal defocus: 0.5 µm - 3.2 µm
Nominal magnification: 62000.0
Specimen holder model: OTHER
Specialist optics
Energy filter
Name:
GIF 200
Image Recording
[1]
Detector category:
CCD
Detector model: GATAN K2 (4k x 4k)
Number of real images: 271
Average electron dose per image: 30 e/Å2
Details: Every image is average of 30 frames recorded by the direct electron detector
Detector model: GATAN K2 (4k x 4k)
Number of real images: 271
Average electron dose per image: 30 e/Å2
Details: Every image is average of 30 frames recorded by the direct electron detector
Details: Helix handedness is not confirmed by sub-tomogram averaging. Used programs: BSOFT software package, particle picking by EMAN2 with e2helixboxer, 2D classification by Relion, 3D helical reconstruction by IHRSR implemented into SPIDER.
Final
reconstruction
Resolution: 11.2
Å
(
BY AUTHOR)
Resolution method: OTHER
Algorithm: OTHER
Details: For the reconstruction 1392 segmented particles were used. The particles were 2D classified by Relion and for the reconstruction the helical symmetry was applied using IHRSR.
Resolution method: OTHER
Algorithm: OTHER
Details: For the reconstruction 1392 segmented particles were used. The particles were 2D classified by Relion and for the reconstruction the helical symmetry was applied using IHRSR.
⌯ Applied Symmetry
Software
[1]
| Name | Version | Details |
|---|---|---|
| BSOFT, EMAN2, Relion, SPIDER, IHRSR | - | - |
CTF correction
Details: Phases of individual images are flipped
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Helical reconstruction of amphiphysin N-BAR with a membrane tube diameter of 156 Angstrom.
Details: ::::EMDATABANK.org::::EMD-3193::::
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Helical reconstruction of amphiphysin N-BAR with a membrane tube diameter of 156 Angstrom.
Details: ::::EMDATABANK.org::::EMD-3193::::
⬡ Geometry
| X | Y | Z | |
|---|---|---|---|
| Origin | 0 | 0 | 0 |
| Dimensions (px) | 300 | 300 | 300 |
| Dimensions (Å) | 546.0 | 546.0 | 546.0 |
| Voxel size (Å) | 1.82 | 1.82 | 1.82 |
Contour list
| Primary | Level | Source |
|---|---|---|
| True | 0.001 | AUTHOR |