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Modified BG505 SOSIP-based immunogen RC1 in complex with the elicited V3-glycan patch antibody Ab275MUR
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5T3Z experimental model PDB 4FQQ
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 10.3799 f_angle_d 1.1364 f_chiral_restr 0.0627 f_plane_restr 0.0081 f_bond_d 0.0069
Sample Complex of RC1 variant of BG505 SOSIP.664 trimer with three Ab275MUR Fabs and three 8ANC195 Fabs Sample Components RC1 variant of BG505 SOSIP.664 trimer Ab275MUR Fab
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details 0 blot force, 3 second blot time, 3 uL sample added to freshly glow-discharged grids
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 49308 Reported Resolution (Å) 4.4 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C3
Map-Model Fitting and Refinement Id 1 (5T3Z, 5T3Z, 4FQQ, 4FQQ) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Correlation coefficient Overall B Value Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON III (4k x 4k) Electron Dose (electrons/Å**2) 40
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TALOS ARCTICA Minimum Defocus (nm) 800 Maximum Defocus (nm) 2500 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 73000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION EPU CTF CORRECTION Gctf 1.06 MODEL FITTING UCSF Chimera INITIAL EULER ASSIGNMENT cryoSPARC 2.1 FINAL EULER ASSIGNMENT cryoSPARC 2.1 CLASSIFICATION cryoSPARC 2.1 RECONSTRUCTION cryoSPARC 2.1 MODEL REFINEMENT PHENIX 1.14
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION