EMD-2299
Negative stain EM structure of the PTC3 holotoxin complex (TcdA1, TcdB2, TccC3) in prepore state
EMD-2299
Single-particle24.6 Å
Deposition: 25/01/2013
Map released: 13/02/2013
Last modified: 03/04/2013
Buffer
pH: 5.0
Details: 50 mM MES, 100 mM NaCl, 0.05% Tween-20, 5% glycerol
Details: 50 mM MES, 100 mM NaCl, 0.05% Tween-20, 5% glycerol
Staining
Type:
NEGATIVE
Details: Grids with adsorbed Protein floated on 0.07% Uranyl Formate for 45 sec.
Details: Grids with adsorbed Protein floated on 0.07% Uranyl Formate for 45 sec.
Grid
Details: Glow discharged 400 mesh copper grids with thin carbon support
Microscope: JEOL 1400
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: LAB6
Acceleration voltage: 120 kV
Nominal CS: 3.4 mm
Nominal defocus: 0.0012 µm - 0.002 µm
Nominal magnification: 50000.0
Calibrated magnification: 67210.0
Specimen holder model: JEOL
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: LAB6
Acceleration voltage: 120 kV
Nominal CS: 3.4 mm
Nominal defocus: 0.0012 µm - 0.002 µm
Nominal magnification: 50000.0
Calibrated magnification: 67210.0
Specimen holder model: JEOL
Image Recording
[1]
Details: Partial-symmetry projection matching approach (after each refinement round, C5 symmetry was applied for the TcdA1 component)
Final
reconstruction
Resolution: 24.6
Å
(
BY AUTHOR)
Resolution method: FSC 0.5 CUT-OFF
Number of images used: 3022
Algorithm: OTHER
Details:
Resolution method: FSC 0.5 CUT-OFF
Number of images used: 3022
Algorithm: OTHER
Details:
⌯ Applied Symmetry
Point group:
C1
Software
[1]
Name | Version | Details |
---|---|---|
Sparx | - | - |
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Reconstruction of PTC3 holotoxin complex in prepore state
Details: ::::EMDATABANK.org::::EMD-2299::::
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Reconstruction of PTC3 holotoxin complex in prepore state
Details: ::::EMDATABANK.org::::EMD-2299::::
⬡ Geometry
X | Y | Z | |
---|---|---|---|
Dimensions | 112 | 112 | 112 |
Origin | 0 | 0 | 0 |
Spacing | 112 | 112 | 112 |
Voxel size | 4.64 Å | 4.64 Å | 4.64 Å |
Contour list
Primary | Level | Source |
---|---|---|
True | 0.021 | AUTHOR |