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CryoEM structure of anti-MHC-I Fab B1.23.2 complex with HLA-B44:05
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8TQ6
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 7.918 f_angle_d 0.659 f_chiral_restr 0.042 f_plane_restr 0.005 f_bond_d 0.004
Sample Complex of Anti-human-mAb B1.23.2 Fab and MHC-I HLA-B44:05
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 406992 Reported Resolution (Å) 3.31 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (8TQ6) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target CC Overall B Value 128.8 Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 54.2
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 700 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 105000 Calibrated Magnification 60096 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 4.4.1 IMAGE ACQUISITION SerialEM 3.8-4.0 CTF CORRECTION cryoSPARC 4.4.1 MODEL FITTING UCSF ChimeraX 1.7.1 MODEL REFINEMENT PHENIX 1.19.2-4158 CLASSIFICATION cryoSPARC 4.4.1 RECONSTRUCTION cryoSPARC 4.4.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details NONE PATCH CTF estimation 662994