6W18
Structure of S. pombe Arp2/3 complex in inactive state
ELECTRON MICROSCOPY
Refinement
RMS Deviations | |
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Key | Refinement Restraint Deviation |
f_dihedral_angle_d | 19.484 |
f_angle_d | 0.5135 |
f_chiral_restr | 0.0408 |
f_bond_d | 0.0025 |
f_plane_restr | 0.0018 |
Sample |
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Arp2/3 complex |
Specimen Preparation | |
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Sample Aggregation State | PARTICLE |
Vitrification Instrument | HOMEMADE PLUNGER |
Cryogen Name | ETHANE |
Sample Vitrification Details | 4 uL of sample was applied to freshly glow-discharged grid. Excess sample was manually blotted off with a dry Whatman No.1 filter paper for 5-7 second ... |
3D Reconstruction | |
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Reconstruction Method | SINGLE PARTICLE |
Number of Particles | 112170 |
Reported Resolution (Å) | 4.2 |
Resolution Method | FSC 0.143 CUT-OFF |
Other Details | |
Refinement Type | |
Symmetry Type | POINT |
Point Symmetry | C1 |
Map-Model Fitting and Refinement | |||||
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Id | 1 (3DWL) | ||||
Refinement Space | REAL | ||||
Refinement Protocol | FLEXIBLE FIT | ||||
Refinement Target | |||||
Overall B Value | |||||
Fitting Procedure | |||||
Details |
Data Acquisition | |||||||||
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Detector Type | FEI FALCON III (4k x 4k) | ||||||||
Electron Dose (electrons/Å**2) | 44.34 |
Imaging Experiment | 1 |
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Date of Experiment | |
Temperature (Kelvin) | |
Microscope Model | FEI TALOS ARCTICA |
Minimum Defocus (nm) | -700 |
Maximum Defocus (nm) | -1300 |
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 | 120000 |
Calibrated Magnification | |
Source | FIELD EMISSION GUN |
Acceleration Voltage (kV) | 200 |
Imaging Details | Data were collected by combining untilted and tilted (20, 30 and 40 degrees) images. Stage shifting to the targeted exposure position was used for navigation during data acquisition. |
EM Software | ||
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Task | Software Package | Version |
PARTICLE SELECTION | cryoSPARC | 2.12.4 |
IMAGE ACQUISITION | EPU | 2.2.0.65 |
CTF CORRECTION | cryoSPARC | 2.12.4 |
MODEL FITTING | NAMD | |
MODEL FITTING | Coot | |
MODEL FITTING | UCSF Chimera | |
FINAL EULER ASSIGNMENT | cryoSPARC | 2.12.4 |
CLASSIFICATION | cryoSPARC | 2.12.4 |
RECONSTRUCTION | cryoSPARC | 2.12.4 |
MODEL REFINEMENT | PHENIX |
Image Processing | ||||
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CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
PHASE FLIPPING AND AMPLITUDE CORRECTION | Local CTF estimation was performed for all micrographs using the CTF estimation package within cryoSPARC. | 3336981 | Automated Gaussian-based blob picker was used. |