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The Cryo-EM structure of human tRNA methyltransferase FTSJ1-THADA with substrate tRNA and S-adenosyl homocysteine (SAH)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold Q6YHU6 in silico model AlphaFold Q9UET6
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 11.2428 f_angle_d 0.6794 f_chiral_restr 0.0446 f_bond_d 0.008 f_plane_restr 0.0047
Sample The Cryo-EM structure of tRNA methyltransferase FTSJ1-THADA with substrate tRNA and S-adenosyl homocysteine (SAH)
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 1854516 Reported Resolution (Å) 2.66 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 Refinement Space Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details alphafold prediction was used as initial model of FTSJ1-THADA
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 50
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 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 crYOLO 1.8.2 CTF CORRECTION RELION 3.1.3 MODEL FITTING UCSF Chimera 1.14 MODEL FITTING Coot 0.9.5 MODEL REFINEMENT PHENIX 1.18 MODEL REFINEMENT Coot 0.9.5 INITIAL EULER ASSIGNMENT RELION 3.1.3 FINAL EULER ASSIGNMENT RELION 3.1.3 CLASSIFICATION RELION 3.1.3 RECONSTRUCTION RELION 3.1.3
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 7275741