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Meprin alpha helix in complex with fetuin-B
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7UAB experimental model PDB 7AUW
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 22.344 f_angle_d 1.777 f_chiral_restr 0.104 f_bond_d 0.013 f_plane_restr 0.012
Sample Tetrameric portion of meprin alpha helix in complex with fetuin-B [subparticle localised reconstruction]
Specimen Preparation Sample Aggregation State FILAMENT Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details 3 s blot, -3 force
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 115951 Reported Resolution (Å) 2.8 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (7UAB, 7AUW) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 44.5
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 500 Maximum Defocus (nm) 2000 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 130000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION crYOLO 1.8.1 IMAGE ACQUISITION EPU CTF CORRECTION CTFFIND 4.1.13 CTF CORRECTION Warp 1.0.7 MODEL FITTING UCSF ChimeraX 1.3 MODEL FITTING UCSF Chimera 1.13 MODEL FITTING ISOLDE 1.1.0 MODEL FITTING Coot 0.9.2 INITIAL EULER ASSIGNMENT cryoSPARC 3.3.1 INITIAL EULER ASSIGNMENT RELION 3.1 FINAL EULER ASSIGNMENT RELION 3.1 FINAL EULER ASSIGNMENT cryoSPARC 3.3.1 CLASSIFICATION RELION 3.1 MODEL REFINEMENT ISOLDE 1.1.0 MODEL REFINEMENT Coot 0.9.2 MODEL REFINEMENT PHENIX
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 519760 Localised subparticles extrated after expansion of pseudo-helical symmetry