8F6R
CryoEM structure of designed modular protein oligomer C6-79
ELECTRON MICROSCOPY
Refinement
RMS Deviations | |
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Key | Refinement Restraint Deviation |
f_dihedral_angle_d | 14.8274 |
f_angle_d | 0.7285 |
f_chiral_restr | 0.3174 |
f_bond_d | 0.005 |
f_plane_restr | 0.0046 |
Sample |
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Self-assembled homo-hexamer of de novo designed protein C6-79 |
Specimen Preparation | |
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Sample Aggregation State | PARTICLE |
Vitrification Instrument | FEI VITROBOT MARK IV |
Cryogen Name | ETHANE |
Sample Vitrification Details | blot time = 6s; blot force = 0 |
3D Reconstruction | |
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Reconstruction Method | SINGLE PARTICLE |
Number of Particles | 864566 |
Reported Resolution (Å) | 4 |
Resolution Method | FSC 0.143 CUT-OFF |
Other Details | |
Refinement Type | |
Symmetry Type | POINT |
Point Symmetry | C6 |
Map-Model Fitting and Refinement | |||||
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Id | 1 | ||||
Refinement Space | REAL | ||||
Refinement Protocol | AB INITIO MODEL | ||||
Refinement Target | Correlation coefficients | ||||
Overall B Value | |||||
Fitting Procedure | |||||
Details | Designed oligomer was used as initial model and was initially fit into map using UCSF Chimera |
Data Acquisition | |||||||||
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Detector Type | GATAN K3 (6k x 4k) | ||||||||
Electron Dose (electrons/Å**2) | 61.3 |
Imaging Experiment | 1 |
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Date of Experiment | |
Temperature (Kelvin) | |
Microscope Model | FEI TITAN KRIOS |
Minimum Defocus (nm) | 800 |
Maximum Defocus (nm) | 2500 |
Minimum Tilt Angle (degrees) | |
Maximum Tilt Angle (degrees) | |
Nominal CS | |
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 | ||
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Task | Software Package | Version |
PARTICLE SELECTION | cryoSPARC | |
IMAGE ACQUISITION | Leginon | |
CTF CORRECTION | cryoSPARC | |
MODEL FITTING | UCSF Chimera | |
MODEL REFINEMENT | PHENIX | 1.16 |
INITIAL EULER ASSIGNMENT | cryoSPARC | |
FINAL EULER ASSIGNMENT | cryoSPARC | |
RECONSTRUCTION | cryoSPARC | |
Image Processing | ||||
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CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
PHASE FLIPPING AND AMPLITUDE CORRECTION |