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Structure of VcINDY-Na-Fab84 in nanodisc
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5UL9
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 11.6317 f_angle_d 0.9343 f_chiral_restr 0.0626 f_bond_d 0.0126 f_plane_restr 0.0083
Sample Complex of VcINDY and Fab84
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 92239 Reported Resolution (Å) 3.15 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C2
Map-Model Fitting and Refinement Id 1 (5UL9) Refinement Space Refinement Protocol Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 44
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TALOS ARCTICA Minimum Defocus (nm) 100 Maximum Defocus (nm) 1500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 36000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION SerialEM CTF CORRECTION cryoSPARC 2.12 MODEL FITTING Coot MODEL REFINEMENT PHENIX INITIAL EULER ASSIGNMENT cryoSPARC 2.12 FINAL EULER ASSIGNMENT cryoSPARC 2.12 CLASSIFICATION cryoSPARC 2.12 RECONSTRUCTION cryoSPARC 2.12
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION