EMD-8585
CryoEM structure of crosslinked E.coli RNA polymerase elongation complex
EMD-8585
Single-particle4.05 Å
Deposition: 02/02/2017
Map released: 05/04/2017
Last modified: 16/08/2017
Concentration: 3
mg/mL
Details: This sample was monodisperse
Details: This sample was monodisperse
Buffer
pH: 8.0
Buffer components [4]:
Buffer components [4]:
Name | Formula | Concentration | ChEBI |
---|---|---|---|
Potassium chloride | KCl | 150.0 mM | |
Tris | Tris | 20.0 mM | |
Magnesium chloride | MgCl2 | 5.0 mM | |
Dithiothreitol | DTT | 5.0 mM |
Grid
Vitrification
Cryogen name: ETHANE
Chamber humidity: 100%
Chamber temperature: 295 K
Instrument: FEI VITROBOT MARK IV
Chamber humidity: 100%
Chamber temperature: 295 K
Instrument: FEI VITROBOT MARK IV
Microscope: FEI TITAN KRIOS
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 300 kV
Nominal CS: 2.7 mm
Nominal defocus: 0.8 µm - 2.4 µm
Calibrated defocus: 0.8 µm - 2.5 µm
Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 300 kV
Nominal CS: 2.7 mm
Nominal defocus: 0.8 µm - 2.4 µm
Calibrated defocus: 0.8 µm - 2.5 µm
Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Image Recording
[1]
Detector model:
GATAN K2 SUMMIT (4k x 4k)
Detector mode: SUPER-RESOLUTION
Dimensions: 3710 pixel x 3838 pixel
Frames per image: 3-50
Number of grids: 1
Number of real images: 2000
Average exposure time: 15.0 s
Average electron dose per image: 85.2 e/Å2
Detector mode: SUPER-RESOLUTION
Dimensions: 3710 pixel x 3838 pixel
Frames per image: 3-50
Number of grids: 1
Number of real images: 2000
Average exposure time: 15.0 s
Average electron dose per image: 85.2 e/Å2
Final
reconstruction
Resolution: 4.05
Å
(
BY AUTHOR)
Resolution method: FSC 0.143 CUT-OFF
Number of classed used: 1
Number of images used: 83800
Resolution method: FSC 0.143 CUT-OFF
Number of classed used: 1
Number of images used: 83800
⌯ Applied Symmetry
Point group:
C1
Software
[1]
Name | Version | Details |
---|---|---|
RELION | 2.0 | - |
Startup model
[1]
Type:
OTHER
Details:E.coli core enzyme structure were extracted from PDB 4LLG, and converted to map by using EMAN2 command e2pdb2mrc.py
Details:E.coli core enzyme structure were extracted from PDB 4LLG, and converted to map by using EMAN2 command e2pdb2mrc.py
Particle selection
[1]
Selected | Ref. model | Method | Software | Details |
---|---|---|---|---|
275600 | - | - | - | - |
Final 3D classification
Number of classes:
6
Avg. number of members per classes: 45900.0
Avg. number of members per classes: 45900.0
Software
[1]
Name | Version | Details |
---|---|---|
RELION | 2.0 | - |
CTF correction
Details:CTF parameters were estimated by CTFFIND4
Software
[1]
Name | Version | Details |
---|---|---|
CTFFIND4 | 4 | - |
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: CryoEM structure of crosslinked E.coli RNA polymerase elongation complex
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: CryoEM structure of crosslinked E.coli RNA polymerase elongation complex
⬡ Geometry
X | Y | Z | |
---|---|---|---|
Dimensions | 256 | 256 | 256 |
Origin | 0 | 0 | 0 |
Spacing | 256 | 256 | 256 |
Voxel size | 1.3 Å | 1.3 Å | 1.3 Å |
Contour list
Primary | Level | Source |
---|---|---|
True | 0.015 | EMDB |