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Staphylococcus aureus FusB bound to the large subunit of the Escherichia coli 70S ribosome (FusB-70S:LSU)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8P2H
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 10.804 r_dihedral_angle_6_deg 6.678 r_dihedral_angle_2_deg 5.515 r_lrange_it 5.378 r_lrange_other 5.378 r_dihedral_angle_1_deg 4.434 r_mcangle_it 2.808 r_mcangle_other 2.808 r_scangle_it 2.686 r_scangle_other 2.686
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 10.804 r_dihedral_angle_6_deg 6.678 r_dihedral_angle_2_deg 5.515 r_lrange_it 5.378 r_lrange_other 5.378 r_dihedral_angle_1_deg 4.434 r_mcangle_it 2.808 r_mcangle_other 2.808 r_scangle_it 2.686 r_scangle_other 2.686 r_mcbond_it 1.52 r_mcbond_other 1.52 r_scbond_it 1.507 r_scbond_other 1.507 r_angle_refined_deg 0.712 r_dihedral_angle_other_2_deg 0.697 r_angle_other_deg 0.279 r_nbtor_refined 0.221 r_symmetry_nbd_other 0.199 r_nbd_refined 0.143 r_xyhbond_nbd_refined 0.127 r_symmetry_nbtor_other 0.072 r_symmetry_xyhbond_nbd_other 0.042 r_chiral_restr 0.029 r_bond_refined_d 0.003 r_gen_planes_refined 0.003 r_gen_planes_other 0.001 r_bond_other_d
Sample Staphylococcus aureus EF-G on 70S ribosomes Sample Components FusB mRNA 70S ribosome
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 29766 Reported Resolution (Å) 2.4 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (8P2H, 9GHE) Refinement Space REAL Refinement Protocol Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 45.47
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 700 Maximum Defocus (nm) 1000 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 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 3613403