Actin-binding domain of Legionella pneumophila effector LFAT1 (lpg1387) bound to F-actin
ELECTRON MICROSCOPY
Refinement
| RMS Deviations | |
|---|---|
| Key | Refinement Restraint Deviation |
| f_dihedral_angle_d | 5.051 |
| f_angle_d | 0.585 |
| f_chiral_restr | 0.04 |
| f_plane_restr | 0.005 |
| f_bond_d | 0.003 |
| Sample |
|---|
| 1:1 complex LFAT1's FCC domain with F-actin |
| Sample Components |
| Alpha actin from Bovine skeletal muscle |
| F-actin-binding Coiled-coil domain of the LFAT1 effector from Legionella pneumohila |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | FILAMENT |
| Vitrification Instrument | FEI VITROBOT MARK IV |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | HELICAL |
| Number of Particles | 1220462 |
| Reported Resolution (Å) | 3.58 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | HELICAL |
| Axial Symmetry | C1 |
| Axial Rise | 28 |
| Angular Rotation | -167 |
| Axial Symmetry | C1 |
| Axial Rise | 28 |
| Angular Rotation | -167 |
| Axial Symmetry | C1 |
| Axial Rise | 28 |
| Angular Rotation | -167 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | RIGID BODY FIT | ||||
| Refinement Target | cross-correlation coefficient | ||||
| Overall B Value | 144 | ||||
| Fitting Procedure | |||||
| Details | Initial models were docked using Chimera's rigid-body fitting followed by real-space refinement in PHENIX | ||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | GATAN K3 BIOQUANTUM (6k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | 40.68 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | |
| Microscope Model | FEI TALOS ARCTICA |
| Minimum Defocus (nm) | 400 |
| Maximum Defocus (nm) | 3000 |
| Minimum Tilt Angle (degrees) | |
| Maximum Tilt Angle (degrees) | |
| Nominal CS | |
| Imaging Mode | DIFFRACTION |
| Specimen Holder Model | |
| Nominal Magnification | 100000 |
| Calibrated Magnification | |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 200 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| PARTICLE SELECTION | cryoSPARC | |
| MODEL FITTING | UCSF ChimeraX | 1.25 |
| CLASSIFICATION | cryoSPARC | |
| RECONSTRUCTION | cryoSPARC | 3.0 |
| MODEL REFINEMENT | PHENIX | 9.0 |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| NONE | 1733108 | particles were automatically picked via the helical tracer tool from CryoSparc | ||
