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Structure of full-length CD20 in complex with Obinutuzumab Fab
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3PP4
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 16.729 f_angle_d 0.554 f_chiral_restr 0.04 f_plane_restr 0.005 f_bond_d 0.002
Sample Full-length human antigen CD20 in complex with Obinutuzumab Fab Sample Components Full-length human CD20 Obinutuzumab Fab
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details Grids were blot for 3.5 Sec.
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 65203 Reported Resolution (Å) 4.33 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (3PP4, 3PP4) 2 (3PP4, 3PP4) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 42.84
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 Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 2.14.2 IMAGE ACQUISITION SerialEM CTF CORRECTION Gctf 1.06 MODEL FITTING UCSF Chimera 1.13.1 MODEL FITTING Coot 0.8.9.2 INITIAL EULER ASSIGNMENT cryoSPARC 2.14.2 FINAL EULER ASSIGNMENT cryoSPARC 2.14.2 CLASSIFICATION cryoSPARC 2.14.2 RECONSTRUCTION cryoSPARC 2.14.2 MODEL REFINEMENT PHENIX 1.17.1 MODEL FITTING UCSF Chimera 1.13.1 MODEL FITTING Coot 0.8.9.2 MODEL REFINEMENT PHENIX 1.17.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION Gctf 1316678