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Structure of human constitutive 20S proteasome complexed with the inhibitor TDI-8304
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5LF3
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 6.114 f_angle_d 0.543 f_chiral_restr 0.043 f_bond_d 0.004 f_plane_restr 0.004
Sample Human 20S constitutive proteasome complexed with inhibitor TDI-8304
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 1250898 Reported Resolution (Å) 2.04 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C2
Map-Model Fitting and Refinement Id 1 (5LF3) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value 26.07 Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 58
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 1400 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 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 4.2.1 IMAGE ACQUISITION SerialEM CTF CORRECTION cryoSPARC 4.2.1 MODEL FITTING UCSF Chimera 1.14 MODEL REFINEMENT PHENIX 1.20.1-4487 INITIAL EULER ASSIGNMENT cryoSPARC 4.2.1 FINAL EULER ASSIGNMENT cryoSPARC 4.2.1 CLASSIFICATION cryoSPARC 4.2.1 RECONSTRUCTION cryoSPARC 4.2.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 2072882