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Single Particle Reconstruction of Phosphatidylinositol (3,4,5) trisphosphate-dependent Rac exchanger 1 bound to G protein beta gamma subunits
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3V5W experimental model PDB 3QIK
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 8.9907 f_angle_d 0.9669 f_chiral_restr 0.0592 f_plane_restr 0.0067 f_bond_d 0.0058
Sample P-Rex1 bound to G protein beta gamma subunits Sample Components Phosphatidylinositol (3,4,5) trisphosphate-dependent Rac exchanger 1 G protein beta-1 subunit G protein gamma-2 subunit
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 205599 Reported Resolution (Å) 3.2 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (3V5W, 3V5W, 3QIK) Refinement Space REAL Refinement Protocol AB INITIO MODEL Refinement Target Overall B Value 83 Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 47
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) Maximum Defocus (nm) 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 29000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION Leginon 3.2 CTF CORRECTION Warp 1.0.6 MODEL FITTING PHENIX 1.14-3260 MODEL REFINEMENT PHENIX 1.14-3260 INITIAL EULER ASSIGNMENT cryoSPARC v0.65 FINAL EULER ASSIGNMENT cryoSPARC v0.65 CLASSIFICATION cryoSPARC v0.65 RECONSTRUCTION cryoSPARC v0.65
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 905464 600,588 particles (untilted) and 304,876 particles (30 degree tilted)