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human m-AAA protease AFG3L2, substrate-bound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6AZ0
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK III Cryogen Name ETHANE Sample Vitrification Details Sample was blotted for 3 seconds using Whatman No. 1 filter paper immediately prio to plunge-freezing.
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 1129437 Reported Resolution (Å) 3 Resolution Method FSC 0.143 CUT-OFF Other Details Multi-body refinement was used to generate 3 different reconstructions that were stitched together Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (6AZ0) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value 85 Fitting Procedure Details The sequence was threaded onto the PDB ID 6AZ0 and built into the EM density with Coot.
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 40
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TECNAI ARCTICA Minimum Defocus (nm) 8000 Maximum Defocus (nm) 18000 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 36000 Calibrated Magnification 43478 Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION FindEM IMAGE ACQUISITION Leginon 3.2 CTF CORRECTION CTFFIND 4 CTF CORRECTION RELION 3.0 MODEL FITTING UCSF Chimera 1.11.2 INITIAL EULER ASSIGNMENT RELION 3.0 FINAL EULER ASSIGNMENT RELION 3.0 RECONSTRUCTION RELION 3.0 MODEL REFINEMENT PHENIX 1.11.1_2580
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION CTF estimated with CTFFIND 4, local CTF estimated with 4541491 Picked with FindEM