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BJOX2000.664 trimer in complex with Fab fragment of broadly neutralizing HIV antibody PGT145
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5V8L
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 7.426 f_angle_d 0.724 f_chiral_restr 0.06 f_plane_restr 0.004 f_bond_d 0.003
Sample BJOX2000.664 trimer in complex with broadly neutralizing HIV antibody PGT145
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 667012 Reported Resolution (Å) 4.9 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (5V8L) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details Rigid body fitting followed by real space refinement to improve map occupancy
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 162.24
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 750 Maximum Defocus (nm) 3000 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 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 RELION IMAGE ACQUISITION Leginon CTF CORRECTION CTFFIND MODEL FITTING UCSF Chimera MODEL REFINEMENT PHENIX 1.20.1_4487: INITIAL EULER ASSIGNMENT RELION FINAL EULER ASSIGNMENT RELION CLASSIFICATION RELION RECONSTRUCTION RELION
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION