9VBV | pdb_00009vbv

Cryo-EM structure of a CARD1 ectodomain H197A/H199A/H222A mutant

ELECTRON MICROSCOPY

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
in silico model	AlphaFold	AF-Q8GZ99-F1

Refinement

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_d	6.7451
f_angle_d	0.61
f_chiral_restr	0.0493
f_plane_restr	0.0061
f_bond_d	0.0038

Sample
CARD1

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	FEI VITROBOT MARK IV
Cryogen Name	ETHANE
Sample Vitrification Details	3 microliters droplet, 5 seconds delay before blotting, 3 seconds blot, 0 second delay before plunging.

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	220439
Reported Resolution (Å)	3.61
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	POINT

Map-Model Fitting and Refinement
Id	1
Refinement Space
Refinement Protocol	RIGID BODY FIT
Refinement Target
Overall B Value
Fitting Procedure
Details

Data Acquisition
Detector Type	GATAN K3 (6k x 4k)
Electron Dose (electrons/Å**2)	40

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	JEOL CRYO ARM 200
Minimum Defocus (nm)	700
Maximum Defocus (nm)	2200
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging Mode	BRIGHT FIELD
Specimen Holder Model
Nominal Magnification
Calibrated Magnification
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	200
Imaging Details

EM Software
Task	Software Package	Version
PARTICLE SELECTION	cryoSPARC	3.2
IMAGE ACQUISITION	SerialEM
CTF CORRECTION	cryoSPARC	3.2
MODEL FITTING	UCSF Chimera
MODEL REFINEMENT	PHENIX	1.21.2
INITIAL EULER ASSIGNMENT	cryoSPARC	3.2
FINAL EULER ASSIGNMENT	cryoSPARC	3.2
RECONSTRUCTION	cryoSPARC	3.2

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
NONE		1104287