EMD-5440
Regulation of mammalian transcription by Gdown1 through a novel steric crosstalk revealed by cryo-EM
EMD-5440
Single-particle19.0 Å
Deposition: 29/06/2012
Map released: 13/02/2013
Last modified: 13/02/2013
Concentration: 1
mg/mL
Buffer
pH: 8.0
Details: 50 mM Tris-Cl, 200 mM KOAc, 5mM MgCl2, 5 mM DDT
Details: 50 mM Tris-Cl, 200 mM KOAc, 5mM MgCl2, 5 mM DDT
Grid
Details: 200 mesh quantifoil grid with thin carbon layer
Vitrification
Cryogen name: ETHANE
Chamber humidity: 80%
Instrument: HOMEMADE PLUNGER
Method: Blot before plunging
Chamber humidity: 80%
Instrument: HOMEMADE PLUNGER
Method: Blot before plunging
Microscope: JEOL 2100F
Illumination mode: SPOT SCAN
Imaging mode: DARK FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 200 kV
Specimen holder model: GATAN LIQUID NITROGEN
Illumination mode: SPOT SCAN
Imaging mode: DARK FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 200 kV
Specimen holder model: GATAN LIQUID NITROGEN
Image Recording
[1]
Scanner:
ZEISS SCAI
Number of real images: 150
Average electron dose per image: 20 e/Å2
Bits per pixel: 16.0
Number of real images: 150
Average electron dose per image: 20 e/Å2
Bits per pixel: 16.0
Final
reconstruction
Resolution: 19.0
Å
(
BY AUTHOR)
Resolution method: FSC 0.143 CUT-OFF
Number of images used: 24000
Resolution method: FSC 0.143 CUT-OFF
Number of images used: 24000
⌯ Applied Symmetry
Point group:
C1
Software
[1]
Name | Version | Details |
---|---|---|
Spider, EMAN2 | - | - |
Final 2D classification
Number of classes:
128
CTF correction
Details:Each particle
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Reconstruction of RNA polymerase II
Details: ::::EMDATABANK.org::::EMD-5440::::
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Reconstruction of RNA polymerase II
Details: ::::EMDATABANK.org::::EMD-5440::::
⬡ Geometry
X | Y | Z | |
---|---|---|---|
Dimensions | 149 | 149 | 149 |
Origin | 0 | 0 | 0 |
Spacing | 149 | 149 | 149 |
Voxel size | 1.9 Å | 1.9 Å | 1.9 Å |
Contour list
Primary | Level | Source |
---|---|---|
True | 0.0025 | EMDB |