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Structure of LINE-1 ORF2p with template:primer hybrid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8C8J
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 7.956 f_angle_d 0.543 f_chiral_restr 0.038 f_bond_d 0.003 f_plane_restr 0.003
Sample Long Interspersed Nuclear Element (LINE)-1 ORF2 protein
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument LEICA EM CPC Cryogen Name ETHANE Sample Vitrification Details Manually blotted from the back
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 430198 Reported Resolution (Å) 3.3 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (8C8J) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value 109 Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 54
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 800 Maximum Defocus (nm) 2500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 3.3.1 IMAGE ACQUISITION SerialEM CTF CORRECTION cryoSPARC 3.3.1 CTF CORRECTION CTFFIND 4.1.13 INITIAL EULER ASSIGNMENT cryoSPARC 3.3.1 INITIAL EULER ASSIGNMENT RELION 3.1 FINAL EULER ASSIGNMENT cryoSPARC 3.3.1 RECONSTRUCTION cryoSPARC 3.3.1 MODEL REFINEMENT PHENIX
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING ONLY 1074466 Particles were template picked using 2D class average references