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1.58 A STRUCTURE OF HUMAN APOFERRITIN OBTAINED FROM TITAN KRIOS 2 AT eBIC, DLS UNDER COMMISSIONING SESSION CM26464-2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6Z6U
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.186 r_dihedral_angle_4_deg 20.567 r_long_range_B_refined 13.209 r_dihedral_angle_3_deg 11.147 r_scbond_it 6.979 r_dihedral_angle_1_deg 4.689 r_mcangle_it 4.306 r_mcbond_it 2.696 r_angle_refined_deg 2.481 r_chiral_restr 0.193
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.186 r_dihedral_angle_4_deg 20.567 r_long_range_B_refined 13.209 r_dihedral_angle_3_deg 11.147 r_scbond_it 6.979 r_dihedral_angle_1_deg 4.689 r_mcangle_it 4.306 r_mcbond_it 2.696 r_angle_refined_deg 2.481 r_chiral_restr 0.193 r_bond_refined_d 0.02 r_gen_planes_refined 0.014 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details blot time of 2.5 seconds
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 250000 Reported Resolution (Å) 1.58 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry O
Map-Model Fitting and Refinement Id 1 (6Z6U) Refinement Space RECIPROCAL Refinement Protocol FLEXIBLE FIT Refinement Target Correlation coefficient Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 34
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 500 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 130000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version CTF CORRECTION CTFFIND MODEL FITTING UCSF Chimera INITIAL EULER ASSIGNMENT RELION 3.1 FINAL EULER ASSIGNMENT RELION 3.1 CLASSIFICATION RELION 3.1 RECONSTRUCTION RELION 3.1 MODEL REFINEMENT REFMAC
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION Done in Relion