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In situ cryoEM structure of the Prototype Foamy Virus capsid, hexamer 2 localised reconstruction
Refinement RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 44.792 r_long_range_B_other 44.792 r_scangle_other 43.908 r_scbond_it 32.746 r_scbond_other 32.742 r_mcangle_it 30.777 r_mcangle_other 30.775 r_mcbond_it 24.923 r_mcbond_other 24.919 r_dihedral_angle_3_deg 17.325
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 44.792 r_long_range_B_other 44.792 r_scangle_other 43.908 r_scbond_it 32.746 r_scbond_other 32.742 r_mcangle_it 30.777 r_mcangle_other 30.775 r_mcbond_it 24.923 r_mcbond_other 24.919 r_dihedral_angle_3_deg 17.325 r_dihedral_angle_1_deg 7.303 r_angle_refined_deg 1.904 r_dihedral_angle_2_deg 1.246 r_angle_other_deg 0.924 r_chiral_restr 0.068 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_gen_planes_other 0.007 r_bond_other_d r_dihedral_angle_4_deg 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Sample Eastern chimpanzee simian foamy virus
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK III Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 340192 Reported Resolution (Å) 3.5 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 Refinement Space RECIPROCAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 48
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 4000 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 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION crYOLO IMAGE ACQUISITION EPU CTF CORRECTION Gctf MODEL REFINEMENT REFMAC INITIAL EULER ASSIGNMENT RELION FINAL EULER ASSIGNMENT RELION RECONSTRUCTION RELION
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 52141