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Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and AAA mRNA codon in the A-site after uncompleted di-peptide formation
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 14.792 f_angle_d 0.65 f_chiral_restr 0.042 f_bond_d 0.005 f_plane_restr 0.005
Sample Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and AAA mRNA codon in the A-site after uncompleted di-peptide formation Sample Components 50S subunit 30S subunit 23S and 5S rRNA 16S rRNA mRNA and tRNA
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 17151 Reported Resolution (Å) 2.88 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 2 Refinement Space REAL REAL Refinement Protocol RIGID BODY FIT FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details Following rigid body fitting we used online Namdiantor tool to perform initial flexible fitting: https://namdinator.au.dk/namdinator/
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 40
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 900 Maximum Defocus (nm) 2100 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 105000 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 3.3.0 IMAGE ACQUISITION EPU 2.1 CTF CORRECTION cryoSPARC 3.3.0 MODEL FITTING UCSF ChimeraX 1.2.5 MODEL REFINEMENT PHENIX Online MODEL FITTING ISOLDE 1.4 MODEL REFINEMENT PHENIX 1.19.2-4158 INITIAL EULER ASSIGNMENT cryoSPARC 3.3.0 CLASSIFICATION cryoSPARC 3.3.0 RECONSTRUCTION cryoSPARC 3.3.0
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 500