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Domoate-bound GluK2 kainate receptor in partially-open conformation 1
ELECTRON MICROSCOPY
Refinement
RMS Deviations
Key
Refinement Restraint Deviation
f_dihedral_angle_d
7.92
f_angle_d
0.8944
f_chiral_restr
0.0612
f_plane_restr
0.0063
f_bond_d
0.0062
Sample
Homotetrameric GluK2 bound with domoate state 1
Specimen Preparation
Sample Aggregation State
PARTICLE
Vitrification Instrument
FEI VITROBOT MARK IV
Cryogen Name
ETHANE
Sample Vitrification Details
3D Reconstruction
Reconstruction Method
SINGLE PARTICLE
Number of Particles
39636
Reported Resolution (Å)
4.1
Resolution Method
FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type
POINT
Point Symmetry
C1
Map-Model Fitting and Refinement
Id
1
Refinement Space
REAL
Refinement Protocol
RIGID BODY FIT
Refinement Target
0.85
Overall B Value
30
Fitting Procedure
Details
Data Acquisition
Detector Type
GATAN K3 BIOQUANTUM (6k x 4k)
Electron Dose (electrons/Å**2)
60
Imaging Experiment
1
Date of Experiment
Temperature (Kelvin)
Microscope Model
FEI TITAN KRIOS
Minimum Defocus (nm)
1000
Maximum Defocus (nm)
2500
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
2.7
Imaging Mode
OTHER
Specimen Holder Model
FEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification
81000
Calibrated Magnification
Source
FIELD EMISSION GUN
Acceleration Voltage (kV)
300
Imaging Details
EM Software
Task
Software Package
Version
PARTICLE SELECTION
RELION
4.0
IMAGE ACQUISITION
EPU
CTF CORRECTION
Gctf
1.06
MODEL FITTING
UCSF ChimeraX
1.4
MODEL REFINEMENT
PHENIX
1.20.1.4487
INITIAL EULER ASSIGNMENT
RELION
4.0
FINAL EULER ASSIGNMENT
RELION
4.0
CLASSIFICATION
RELION
4.0
RECONSTRUCTION
RELION
4.0
Image Processing
CTF Correction Type
CTF Correction Details
Number of Particles Selected
Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION
2481151
Initially picked particles that are later classified in several rounds of 2D and 3D classifications. The number of final classes for this dataset is 4 of which this state represents "class 1" and contains 39636 as the final number of particles.