3JAE

Structure of alpha-1 glycine receptor by single particle electron cryo-microscopy, glycine-bound state

ELECTRON MICROSCOPY

Refinement

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_d	9.743
f_angle_d	1.114
f_chiral_restr	0.045
f_bond_d	0.006
f_plane_restr	0.006

Sample
zebra fish alpha-1 glycine receptor bound with glycine

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	FEI VITROBOT MARK III
Cryogen Name	ETHANE
Sample Vitrification Details	Blot for 3.5 seconds before plunging into liquid ethane (FEI VITROBOT MARK III).

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	58188
Reported Resolution (Å)	3.9
Resolution Method	FSC 0.143 CUT-OFF
Other Details	Particle picking, 2D classification, 3D classification, refinement, and reconstruction were done using Relion. Movies were aligned using motioncorr. ...	Particle picking, 2D classification, 3D classification, refinement, and reconstruction were done using Relion. Movies were aligned using motioncorr. (Single particle--Applied symmetry: C5)
Refinement Type
Symmetry Type	POINT
Point Symmetry	C5

Map-Model Fitting and Refinement
Id	1 (3RHW, 3RHW, 3RHW, 3RHW, 3RHW)
Refinement Space	REAL
Refinement Protocol	RIGID BODY FIT
Refinement Target
Overall B Value
Fitting Procedure
Details	REFINEMENT PROTOCOL--rigid body DETAILS--The model (3RHW) was fit into the density map using UCSF Chimera. Further de novo model building was done us ...	REFINEMENT PROTOCOL--rigid body DETAILS--The model (3RHW) was fit into the density map using UCSF Chimera. Further de novo model building was done using COOT.

Data Acquisition
Detector Type	GATAN K2 (4k x 4k)
Electron Dose (electrons/Å**2)	44

Imaging Experiment	1
Date of Experiment	2014-12-08
Temperature (Kelvin)
Microscope Model	FEI POLARA 300
Minimum Defocus (nm)	-1500
Maximum Defocus (nm)	-2500
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS	2
Imaging Mode	BRIGHT FIELD
Specimen Holder Model	FEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification
Calibrated Magnification
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details

EM Software
Task	Software Package	Version
MODEL FITTING	UCSF Chimera
RECONSTRUCTION	RELION

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
	each particle

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.