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CD4- and 17-bound HIV-1 Env B41 SOSIP in complex with small molecule GO35
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5VN3
Sample CD4- and 17b-bound HIV-1 Env B41 SOSIP in complex with small molecule GO35 Sample Components 17b fragment antigen binding
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 30415 Reported Resolution (Å) 3.5 Resolution Method FSC 0.143 CUT-OFF Other Details FSC resolution estimation calculated using CryoSparc 2 and Relion 3.0 Refinement Type Symmetry Type POINT Point Symmetry C3
Map-Model Fitting and Refinement Id 1 (5VN3) 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) 60
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 600 Maximum Defocus (nm) 2200 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 29000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 2 IMAGE ACQUISITION Leginon CTF CORRECTION Gctf 1.06 MODEL FITTING UCSF Chimera 1.13 MODEL FITTING Coot 0.9-pre INITIAL EULER ASSIGNMENT cryoSPARC 2 FINAL EULER ASSIGNMENT cryoSPARC 2 CLASSIFICATION cryoSPARC 2 RECONSTRUCTION cryoSPARC 2 MODEL REFINEMENT Rosetta 3.10 MODEL REFINEMENT Coot 0.9-pre
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION