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Actin-binding domain of Legionella pneumophila effector LFAT1 (lpg1387) bound to F-actin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold AF-Q5ZVQ3-F1 in silico model AlphaFold AF-P68138-F1
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