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CryoEM structure of tryptase in complex with engineered conformationally rigid anti-tryptase Fab E104.v1.4DS
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6VVU
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 13.486 f_angle_d 1.202 f_chiral_restr 0.078 f_plane_restr 0.012 f_bond_d 0.011
Sample Tryptase tetramer in complex with Fab E104.v1.4DS Sample Components Tryptase tetramer anti-tryptase Fab E104.v1.4DS
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 253508 Reported Resolution (Å) 2.5 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry D2
Map-Model Fitting and Refinement Id 1 (6VVU) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 66.6
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 500 Maximum Defocus (nm) 1500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cisTEM IMAGE ACQUISITION SerialEM CTF CORRECTION cisTEM MODEL FITTING UCSF ChimeraX MODEL FITTING ISOLDE INITIAL EULER ASSIGNMENT cryoSPARC FINAL EULER ASSIGNMENT cisTEM RECONSTRUCTION cisTEM MODEL REFINEMENT PHENIX 1.21rc1_5049
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION