EMD-10187

Single-particle
3.7 Å
EMD-10187
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Deposition: 05/08/2019
Map released: 09/10/2019
Last modified: 25/12/2019
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EMD-10187
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Map-only Validation report (pdf.gz) Map-only Validation report (cif.gz) Map-only Validation report (xml.gz)
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EMICSS annotations (xml)

Structure of protomer 1 of the ESX-3 core complex

EMD-10187

Single-particle
3.7 Å
EMD-10187
3D View Gallery
Deposition: 05/08/2019
Map released: 09/10/2019
Last modified: 25/12/2019
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Concentration: 0.3 mg/mL
Details: Bound to Amphipol A8-35
Buffer
pH: 8.0
Details: 30 mM Hepes pH 8.0, 150 mM NaCl
Vitrification
Cryogen name: ETHANE
Chamber humidity: 100%
Chamber temperature: 278 K
Instrument: FEI VITROBOT MARK IV
Details: Blotting time: 3s Blotting force: -10.
Microscopy [1]
Microscope: FEI TITAN KRIOS
Illumination mode: SPOT SCAN
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 300 kV
Nominal CS: 2.7 mm
Nominal defocus: 1.6 µm - 2.6 µm
Nominal magnification: 75000.0
Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Cooling holder cryogen: NITROGEN
Image Recording [1]
Detector model: FEI FALCON III (4k x 4k)
Detector mode: COUNTING
Number of real images: 11903
Average electron dose per image: 50.0 e/Å2
Details: Images acquired as 55 frames movies at a calibrated magnification of 1.0635 Angs/px
Image processing [1]
Details: Images were collected in counting mode
Final reconstruction
Resolution: 3.7 Å ( BY AUTHOR)
Resolution method: FSC 0.143 CUT-OFF
Number of images used: 126308
Details: In order to get the best possible resolution for protomer 1, the extra density not corresponding to this protomer was subtracted and masked out during the refinement.
⌯ Applied Symmetry
Point group: C1
Software [1]
Name Version Details
RELION - -
⦨ Initial angle assignment
Type: MAXIMUM LIKELIHOOD
Software [1]
Name Version Details
RELION - -
⦩ Final angle assignment
Type: MAXIMUM LIKELIHOOD
Software [1]
Name Version Details
RELION - -
Particle selection [1]
Selected Ref. model Method Software Details
2066007 - - - -
CTF correction
Software [1]
Name Version Details
Gctf - -
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Structure of protomer 1 of the ESX-3 secretion system
⬡ Geometry
X Y Z
Dimensions 416 416 416
Origin 0 0 0
Spacing 416 416 416
Voxel size 1.0635 Å 1.0635 Å 1.0635 Å
Contour list
Primary Level Source
True 0.03 AUTHOR