6N2P
Helical assembly of the CARD9 CARD
ELECTRON MICROSCOPY
Sample |
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Helical assembly of the CARD9 CARD. |
Specimen Preparation | |
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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 ... |
3D Reconstruction | |
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Reconstruction Method | HELICAL |
Number of Particles | 31908 |
Reported Resolution (Å) | 4 |
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 |
Axial Symmetry | C1 |
Axial Rise | 5.11 |
Angular Rotation | -101.6 |
Map-Model Fitting and Refinement | |||||
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Id | 1 (6E26) | ||||
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 ... |
Data Acquisition | |||||||||
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Detector Type | GATAN K2 SUMMIT (4k x 4k) | ||||||||
Electron Dose (electrons/Å**2) | 50.9 |
Imaging Experiment | 1 |
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Date of Experiment | |
Temperature (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 |
EM Software | ||
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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 | ||||
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CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
PHASE FLIPPING AND AMPLITUDE CORRECTION | 141592 | Filaments were manually selected using e2helixboxer.py. Segments were extracted from filaments using RELION, using a 30 A shift between particles. |