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Structure of E.coli ribosome in complex with an engineered arrest peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3JBU
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 15.9021 f_angle_d 0.5921 f_chiral_restr 0.0397 f_bond_d 0.0061 f_plane_restr 0.0045
Sample E.coli 70S Ribosome in complex with eRAP
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name NITROGEN Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 152000 Reported Resolution (Å) 2.69 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (3JBU) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 38
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 1800 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION RELION 3.1 IMAGE ACQUISITION EPU CTF CORRECTION CTFFIND 4.1 MODEL FITTING UCSF ChimeraX 1.7 MODEL REFINEMENT Coot 0.8.9.3 MODEL REFINEMENT PHENIX 1.20.1 INITIAL EULER ASSIGNMENT cryoSPARC 3.1 FINAL EULER ASSIGNMENT cryoSPARC 3.3.2 CLASSIFICATION RELION 3.1 RECONSTRUCTION cryoSPARC 3.3.2
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 790000