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Staphylococcus aureus FusB bound to the small subunit of the S. aureus 70S ribosome (FusB-Sa70S:SSU)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8P2F in silico model AlphaFold experimental model PDB 4ADN
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 11.896 r_dihedral_angle_2_deg 7.13 r_dihedral_angle_6_deg 6.759 r_lrange_it 5.182 r_lrange_other 5.147 r_dihedral_angle_1_deg 4.791 r_mcangle_it 2.854 r_mcangle_other 2.854 r_scangle_it 2.286 r_scangle_other 2.286
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 11.896 r_dihedral_angle_2_deg 7.13 r_dihedral_angle_6_deg 6.759 r_lrange_it 5.182 r_lrange_other 5.147 r_dihedral_angle_1_deg 4.791 r_mcangle_it 2.854 r_mcangle_other 2.854 r_scangle_it 2.286 r_scangle_other 2.286 r_mcbond_it 1.523 r_mcbond_other 1.523 r_scbond_it 1.239 r_scbond_other 1.239 r_angle_refined_deg 0.72 r_dihedral_angle_other_2_deg 0.58 r_angle_other_deg 0.29 r_nbtor_refined 0.223 r_symmetry_nbd_other 0.2 r_ncsr_local_group_1 0.174 r_nbd_refined 0.141 r_xyhbond_nbd_refined 0.108 r_metal_ion_refined 0.105 r_symmetry_nbtor_other 0.071 r_symmetry_xyhbond_nbd_other 0.047 r_chiral_restr_other 0.037 r_chiral_restr 0.03 r_gen_planes_refined 0.003 r_bond_refined_d 0.002 r_gen_planes_other 0.001 r_bond_other_d
Sample FusB on 70S ribosomes Sample Components FusB
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 67441 Reported Resolution (Å) 2.22 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (8P2F, 4ADN) Refinement Space REAL Refinement Protocol Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type TFS FALCON 4i (4k x 4k) Electron Dose (electrons/Å**2) 28.14
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 700 Maximum Defocus (nm) 1300 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 165000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 4.4.1 IMAGE ACQUISITION EPU CTF CORRECTION cryoSPARC 4.4.1 MODEL FITTING Coot 0.9.8.92 INITIAL EULER ASSIGNMENT cryoSPARC 4.4.1 FINAL EULER ASSIGNMENT cryoSPARC 4.4.1 CLASSIFICATION cryoSPARC 4.4.1 RECONSTRUCTION cryoSPARC 4.4.1 MODEL REFINEMENT Servalcat MODEL REFINEMENT Coot 0.9.8.92
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 859410