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E. coli 70S ribosome, trapped conformational ground state of SSU-h44 apical loop, with A/P- and P/E-site tRNA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7K00
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 10.853 r_dihedral_angle_3_deg 10.384 r_lrange_it 5.77 r_lrange_other 5.77 r_dihedral_angle_1_deg 5.643 r_dihedral_angle_2_deg 3.742 r_mcangle_it 3.636 r_mcangle_other 3.636 r_scangle_it 3.135 r_scangle_other 3.135
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 10.853 r_dihedral_angle_3_deg 10.384 r_lrange_it 5.77 r_lrange_other 5.77 r_dihedral_angle_1_deg 5.643 r_dihedral_angle_2_deg 3.742 r_mcangle_it 3.636 r_mcangle_other 3.636 r_scangle_it 3.135 r_scangle_other 3.135 r_mcbond_it 2.047 r_mcbond_other 2.047 r_scbond_it 1.866 r_scbond_other 1.866 r_angle_refined_deg 0.831 r_dihedral_angle_other_2_deg 0.431 r_angle_other_deg 0.298 r_nbtor_refined 0.222 r_symmetry_nbd_other 0.182 r_nbd_refined 0.147 r_xyhbond_nbd_refined 0.128 r_symmetry_nbtor_other 0.075 r_symmetry_xyhbond_nbd_other 0.055 r_chiral_restr 0.033 r_bond_refined_d 0.005 r_gen_planes_refined 0.004 r_gen_planes_other 0.001 r_bond_other_d
Sample E. coli 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 75660 Reported Resolution (Å) 2.06 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (7K00) Refinement Space RECIPROCAL 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) 51.5
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 300 Maximum Defocus (nm) 2000 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 165000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 4.5.1 IMAGE ACQUISITION EPU CTF CORRECTION cryoSPARC 4.5.1 MODEL FITTING UCSF ChimeraX 1.8 MODEL REFINEMENT REFMAC 5.8.0430 INITIAL EULER ASSIGNMENT cryoSPARC 4.5.1 FINAL EULER ASSIGNMENT cryoSPARC 4.6.2 CLASSIFICATION cryoSPARC 4.5.1 RECONSTRUCTION cryoSPARC 4.6.2
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION