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Cryo-EM structure of native H. thermoluteolus TH-1 GroEL
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 3.684 f_angle_d 0.471 f_chiral_restr 0.04 f_plane_restr 0.004 f_bond_d 0.002
Sample Native H. thermoluteolus GroEL
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details blot force 10, blot time 15 s
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 40366 Reported Resolution (Å) 3.3 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry D7
Map-Model Fitting and Refinement Id 1 Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details Initial fitting was done using UCSF ChimeraX
Data Acquisition Detector Type FEI FALCON IV (4k x 4k) Electron Dose (electrons/Å**2) 50
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TALOS ARCTICA Minimum Defocus (nm) 1000 Maximum Defocus (nm) 2500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 120000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION EPU CTF CORRECTION cryoSPARC 4.3 MODEL FITTING UCSF ChimeraX 1.6 INITIAL EULER ASSIGNMENT cryoSPARC 4.3 FINAL EULER ASSIGNMENT cryoSPARC 4.3 CLASSIFICATION cryoSPARC 4.3 RECONSTRUCTION cryoSPARC 4.3 MODEL REFINEMENT PHENIX 1.2.0 MODEL REFINEMENT ISOLDE 1.6
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION