9FGB | pdb_00009fgb

Cryo-EM structure of the full-length alpha1beta3gamma2 GABA(A) receptor in SMALPs bound to one PIP2 molecule at chain alpha1-A and in complex with Mb38

ELECTRON MICROSCOPY

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6HUK

Refinement

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_d	8.827
f_angle_d	0.532
f_chiral_restr	0.041
f_plane_restr	0.005
f_bond_d	0.004

Sample
Cryo-EM structure of the full-length alpha1beta3gamma2 GABA(A) receptor in SMALPs bound to one PIP2 molecule at chain alpha1-A and in complex with Mb38

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	HOMEMADE PLUNGER
Cryogen Name	ETHANE
Sample Vitrification Details

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	33000
Reported Resolution (Å)	3.8
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	POINT
Point Symmetry	C1

Map-Model Fitting and Refinement
Id	1 (6HUK)
Refinement Space	REAL
Refinement Protocol	OTHER
Refinement Target	FSC at 0.5
Overall B Value	30
Fitting Procedure
Details

Data Acquisition
Detector Type	FEI FALCON IV (4k x 4k)
Electron Dose (electrons/Å**2)	40

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	TFS KRIOS
Minimum Defocus (nm)	1400
Maximum Defocus (nm)	2400
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS	2.7
Imaging Mode	BRIGHT FIELD
Specimen Holder Model	FEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification	75000
Calibrated Magnification	75000
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details

EM Software
Task	Software Package	Version
PARTICLE SELECTION	Warp
IMAGE ACQUISITION	EPU
CTF CORRECTION	CTFFIND	4.1
MODEL FITTING	PHENIX
MODEL REFINEMENT	PHENIX	1.21_5207
INITIAL EULER ASSIGNMENT	cryoSPARC
FINAL EULER ASSIGNMENT	cryoSPARC
CLASSIFICATION	cryoSPARC
RECONSTRUCTION	cryoSPARC

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION		800340