Electron Microscopy Data Bank

EMD-5441

Single-particle
19.0 Å

3D View Gallery

Deposition: 29/06/2012
Map released: 13/02/2013
Last modified: 13/02/2013

Overview 3D View Sample Experiment Validation Volume Browser Additional data Links

EMD-5441

Download

Regulation of mammalian transcription by Gdown1 through a novel steric crosstalk revealed by cryo-EM

EMD-5441

Single-particle
19.0 Å
EMD-5441

3D View Gallery

Deposition: 29/06/2012
Map released: 13/02/2013
Last modified: 13/02/2013

Overview 3D View Sample Experiment Validation Volume Browser Additional data Links

Method: Single-particle
Aggregation State: Particle

Summary:

Specimen preparation
Microscopy
Image processing
Map

Specimen preparation [1]

Concentration: 1 mg/mL

Buffer

pH: 8.0
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

Microscopy [1]

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

Image Recording [1]

Scanner: ZEISS SCAI
Number of real images: 150
Average electron dose per image: 20 e/Å²
Bits per pixel: 16.0

Image processing [1]

Final reconstruction

Resolution: 19.0 Å ( BY AUTHOR)
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

Map

Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Reconstruction of Bovine RNA polymerase II complex
Details: ::::EMDATABANK.org::::EMD-5441::::

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	0.0022	EMDB