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Cryo-EM structure of human claudin-4 complex with Clostridium perfringens enterotoxin, sFab COP-1, and Nanobody
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 84UV experimental model PDB 8U5F
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 6.002 f_angle_d 0.782 f_chiral_restr 0.042 f_plane_restr 0.004 f_bond_d 0.003
Sample Human claudin-4 complex with Clostridium perfringens enterotoxin, sFab COP-1, and Nanobody
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 431680 Reported Resolution (Å) 2.83 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (84uv, 8u5f) 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) 70
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 900 Maximum Defocus (nm) 2100 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 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 4.4 IMAGE ACQUISITION EPU CTF CORRECTION cryoSPARC 4.4 MODEL FITTING UCSF Chimera INITIAL EULER ASSIGNMENT cryoSPARC 4.4 FINAL EULER ASSIGNMENT cryoSPARC 4.4 CLASSIFICATION cryoSPARC 4.4 RECONSTRUCTION cryoSPARC 4.4 MODEL REFINEMENT PHENIX 1.20.1_4487:
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details NONE 5766325