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Cryo-EM structure of the HIV-1 nuclear export complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5DIS experimental model PDB 4PMI
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 8.356 f_angle_d 0.758 f_chiral_restr 0.053 f_plane_restr 0.006 f_bond_d 0.003
Sample HIV-1 Nuclear Export complex Sample Components Crm1 Ran Q69L 1-180 HIV-1 Rev/RRE RNP
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details Washed grid 2x outside of vitrobot; with the second drop of buffer I loaded the tweezers; moved the grid into the chamber and then I blotted.
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 260885 Reported Resolution (Å) 4.25 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (5DIS, 5DIS, 4PMI, 4PMI, 4PMI) Refinement Space Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value 325 Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 66 68
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 800 Maximum Defocus (nm) 2000 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 105000 Calibrated Magnification 59880 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION RELION PARTICLE SELECTION cryoSPARC CTF CORRECTION cryoSPARC CTF CORRECTION RELION MODEL FITTING UCSF ChimeraX INITIAL EULER ASSIGNMENT RELION INITIAL EULER ASSIGNMENT cryoSPARC FINAL EULER ASSIGNMENT RELION RECONSTRUCTION RELION MODEL REFINEMENT PHENIX
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 11176625