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The HIV-1 Envelope Glycoprotein Clone BG505 SOSIP.664 in Complex with Three Copies of the Bovine Broadly Neutralizing Antibody, NC-Cow1, Fragment Antigen Binding Domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5CEZ
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 6.101 f_angle_d 0.977 f_chiral_restr 0.062 f_bond_d 0.007 f_plane_restr 0.006
Sample A complex of the HIV-1 Envelope Glycoprotein clone BG505 SOSIP.664 and 3 copies of the bovine Fab NC-Cow1 Sample Components Envelope Glycoprotein clone BG505 SOSIP.664 bovine Fab NC-Cow1
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 21427 Reported Resolution (Å) 4.5 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C3
Map-Model Fitting and Refinement Id 1 (5CEZ) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 64
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TALOS ARCTICA Minimum Defocus (nm) Maximum Defocus (nm) Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION Leginon CTF CORRECTION Gctf 2 MODEL FITTING UCSF Chimera 1.12 INITIAL EULER ASSIGNMENT RELION 2 FINAL EULER ASSIGNMENT RELION CLASSIFICATION RELION 2 RECONSTRUCTION RELION 2 MODEL REFINEMENT PHENIX 1.13
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION