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Structural Insights into HIV-1 Vif-Mediated Ubiquitination and Degradation of APOBEC3H
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4N9Z experimental model PDB 5Z98
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 12.591 f_angle_d 0.404 f_chiral_restr 0.036 f_plane_restr 0.014 f_bond_d 0.001
Sample Ternary complex of APOBEC3H and Vif of HIV-1
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 215818 Reported Resolution (Å) 4 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (4N9Z, 4N9Z, 4N9Z, 4N9Z, 5Z98, 5Z98, 5Z98, 5Z98) Refinement Space Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value 135 Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 45
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TECNAI ARCTICA Minimum Defocus (nm) 800 Maximum Defocus (nm) 2200 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) 200 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION EPU 4 MODEL FITTING UCSF Chimera 1.6 MODEL REFINEMENT PHENIX 1.21-5207 RECONSTRUCTION cryoSPARC 4.4.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING ONLY