8A1E
Rabies virus glycoprotein in complex with Fab fragments of 17C7 and 1112-1 neutralizing antibodies
ELECTRON MICROSCOPY
Refinement
RMS Deviations | |
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Key | Refinement Restraint Deviation |
f_dihedral_angle_d | 4.7288 |
f_angle_d | 0.523 |
f_chiral_restr | 0.0417 |
f_plane_restr | 0.0039 |
f_bond_d | 0.0031 |
Sample |
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Rabies virus glycoprotein (chain A) in complex with Fab 1112-1 (chains B and C) and Fab 17C7 (chains D and E) |
Specimen Preparation | |
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Sample Aggregation State | PARTICLE |
Vitrification Instrument | FEI VITROBOT MARK IV |
Cryogen Name | ETHANE |
Sample Vitrification Details | Blot for 3.5 seconds at -15 N blot force before plunging. |
3D Reconstruction | |
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Reconstruction Method | SINGLE PARTICLE |
Number of Particles | 458014 |
Reported Resolution (Å) | 2.83 |
Resolution Method | FSC 0.143 CUT-OFF |
Other Details | cryoSPARC non-uniform refinement was used. |
Refinement Type | |
Symmetry Type | POINT |
Point Symmetry | C3 |
Map-Model Fitting and Refinement | |||||
---|---|---|---|---|---|
Id | 1 | ||||
Refinement Space | REAL | ||||
Refinement Protocol | RIGID BODY FIT | ||||
Refinement Target | |||||
Overall B Value | 108 | ||||
Fitting Procedure | |||||
Details | Model building was performed with Coot and refined with Phenix. |
Data Acquisition | |||||||||
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Detector Type | GATAN K3 BIOQUANTUM (6k x 4k) | ||||||||
Electron Dose (electrons/Å**2) | 44.4 |
Imaging Experiment | 1 |
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Date of Experiment | |
Temperature (Kelvin) | |
Microscope Model | FEI TITAN KRIOS |
Minimum Defocus (nm) | 800 |
Maximum Defocus (nm) | 2600 |
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 | 81000 |
Calibrated Magnification | |
Source | FIELD EMISSION GUN |
Acceleration Voltage (kV) | 300 |
Imaging Details |
EM Software | ||
---|---|---|
Task | Software Package | Version |
PARTICLE SELECTION | cryoSPARC | 3.1 |
IMAGE ACQUISITION | SerialEM | |
CTF CORRECTION | Gctf | 1.06 |
MODEL FITTING | UCSF Chimera | |
INITIAL EULER ASSIGNMENT | cryoSPARC | 3.1 |
FINAL EULER ASSIGNMENT | cryoSPARC | 3.1 |
RECONSTRUCTION | cryoSPARC | 3.1 |
MODEL REFINEMENT | PHENIX | 1.19.2_4158 |
Image Processing | ||||
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CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
PHASE FLIPPING AND AMPLITUDE CORRECTION | 3112037 | Particles were automatically picked using circular blobs with a diameter of 80-150 Angstrom on cryoSPARC. |