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The structure of the mature HIV-1 CA pentamer in intact virus particles
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3H4E experimental model PDB 4XFX
Sample Human immunodeficiency virus 1
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK II Cryogen Name ETHANE Sample Vitrification Details 10nm colloidal gold was added to the sample prior to plunge freezing
3D Reconstruction Reconstruction Method SUBTOMOGRAM AVERAGING Number of Particles 2191 Reported Resolution (Å) 8.8 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C5
Map-Model Fitting and Refinement Id 1 (3H4E, 4XFX) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Cross-correlation coefficient Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 QUANTUM (4k x 4k) Electron Dose (electrons/Å**2) 2.2
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 2000 Maximum Defocus (nm) 6500 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 81000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details Nanoprobe
EM Software Task Software Package Version IMAGE ACQUISITION SerialEM CTF CORRECTION IMOD MODEL FITTING MDFF MODEL FITTING NAMD FINAL EULER ASSIGNMENT AV3 FINAL EULER ASSIGNMENT TOM Toolbox RECONSTRUCTION AV3 RECONSTRUCTION TOM Toolbox
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING ONLY CTF correction was performed using the ctfphaseflip program in IMOD prior to backprojection.