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Structure of immature HTLV-1 CA-NTD from in vitro assembled MA126-CANC tubes: axis angle -05 degrees
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8PU6 rigid body fit derived from refined model deposited in D_1292131146
Sample Human T-cell leukemia virus type I
Specimen Preparation Sample Aggregation State HELICAL ARRAY Vitrification Instrument LEICA EM GP Cryogen Name ETHANE Sample Vitrification Details Grids coated with 2nm continuous carbon layer
3D Reconstruction Reconstruction Method SUBTOMOGRAM AVERAGING Number of Particles 59500 Reported Resolution (Å) 3.7 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C2
Map-Model Fitting and Refinement Id 1 Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) GATAN K2 QUANTUM (4k x 4k) Electron Dose (electrons/Å**2) 3.5 3.5
Imaging Experiment 1 2 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS FEI TITAN KRIOS Minimum Defocus (nm) 1000 1500 Maximum Defocus (nm) 4000 3500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 2.7 Imaging Mode BRIGHT FIELD BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification 80000 105000 Calibrated Magnification Source FIELD EMISSION GUN FIELD EMISSION GUN Acceleration Voltage (kV) 300 300 Imaging Details
EM Software Task Software Package Version VOLUME SELECTION subTOM VOLUME SELECTION Warp 1.0.9 VOLUME SELECTION MATLAB R2018b IMAGE ACQUISITION SerialEM CTF CORRECTION Warp 1.0.9 MODEL FITTING UCSF Chimera IMAGE ACQUISITION SerialEM CTF CORRECTION CTFFIND 4.1.10 CTF CORRECTION NOVACTF FINAL EULER ASSIGNMENT Warp 1.0.9 RECONSTRUCTION Warp 1.0.9
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION