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Cryo-EM structure of a thermostable encapsulin from T. maritima
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3DKT
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 6.524 f_angle_d 0.833 f_chiral_restr 0.055 f_bond_d 0.005 f_plane_restr 0.003
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument LEICA EM GP Cryogen Name PROPANE Sample Vitrification Details 3 ul sample applied to the carbon side of the grid and blotted for 4s before plunging.
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 185459 Reported Resolution (Å) 2 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry I
Map-Model Fitting and Refinement Id 1 (3DKT) Refinement Space Refinement Protocol OTHER Refinement Target Overall B Value Fitting Procedure Details Map was cropped to a 342 box size and density modified with PHENIX ResolveCryoEM
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 33.5
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 500 Maximum Defocus (nm) 2500 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 81000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION crYOLO 1.5.4 IMAGE ACQUISITION SerialEM CTF CORRECTION CTFFIND 4.1.9 MODEL FITTING PHENIX 1.18.2 INITIAL EULER ASSIGNMENT RELION 3.1 FINAL EULER ASSIGNMENT RELION 3.1 RECONSTRUCTION RELION 3.1 MODEL REFINEMENT PHENIX 1.18.2
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details NONE 204251 Picked with trained cryolo model