ELECTRON MICROSCOPY

Sample

Helical assembly of the CARD9 CARD.

Specimen Preperation
Sample Aggregation State FILAMENT
Vitrification Instrument FEI VITROBOT MARK IV
Cryogen Name ETHANE
Sample Vitrification Details Sample was incubated on the grid for 1 minute, subsequently washed/blotted 6 times in buffer, followed by addition of 3.5 ul buffer, which was blotted by vitrobot for 5 seconds prior to plunging.
3D Reconstruction
Reconstruction Method HELICAL
Number of Particles 31908
Reported Resolution (Å) 4.0
Resolution Method FSC 0.143 CUT-OFF
Other Details A 5.0 A high-resolution limit was used for particle alignment in frealign.
Refinement Type
Symmetry Type HELICAL
Map-Model Fitting and Refinement
ID 1
Refinement Space REAL
Refinement Protocol RIGID BODY FIT
Refinement Target ?
Overall B Value ?
Fitting Procedure ?
Details "Fit in map" in UCSF Chimera was used to fit the previously determined, lowest energy NMR solution structure (PDB ID 6E26) into the sharpened density and to generate 9 symmetry-mates according to the determined helical parameters. The map was then iteratively refined in Phenix and Coot, maintaining strict non-crystallographic symmetry among the CARDs.
Data Acquisition
Detector Type GATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å2) 50.9
Imaging Experiment
Date of Experiment ?
Temprature (Kelvin)
Microscope Model FEI TITAN KRIOS
Minimum Defocus (nm) 1250
Maximum Defocus (nm) 2500
Minimum Tilt Angle (degrees) ?
Maximum Tilt Angle (degrees) ?
Nominal CS 2.7
Imaging Mode BRIGHT FIELD
Specimen Holder Model ?
Nominal Magnification 130000
Calibrated Magnification ?
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 300
Imaging Details ?
Imaging Experiment
Task Software Package Version
PARTICLE SELECTION EMAN2 ?
PARTICLE SELECTION RELION 2.1
IMAGE ACQUISITION SerialEM ?
CTF CORRECTION CTFFIND ?
MODEL FITTING UCSF Chimera ?
MODEL REFINEMENT PHENIX ?
MODEL REFINEMENT Coot ?
INITIAL EULER ASSIGNMENT RELION 2.1
INITIAL EULER ASSIGNMENT FREALIGN ?
FINAL EULER ASSIGNMENT FREALIGN 9.11
CLASSIFICATION FREALIGN 9.11
RECONSTRUCTION FREALIGN 9.11
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION ?
Feedback Form
Name
Email
Institute
Feedback