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Cryo-EM structure of Patched in lipid nanodisc - the wildtype, 3.5 angstrom (re-processed with dataset of 7dzq)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6MG8
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 18.306 f_angle_d 0.812 f_chiral_restr 0.049 f_plane_restr 0.007 f_bond_d 0.006
Sample Ptc1 in lipid nanodisc
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 172299 Reported Resolution (Å) 3.5 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (6MG8) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value 57.04 Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 60
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1500 Maximum Defocus (nm) 2200 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 120000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION SerialEM CTF CORRECTION Gctf 1.1.8 MODEL FITTING UCSF Chimera MODEL REFINEMENT Coot MODEL REFINEMENT PHENIX INITIAL EULER ASSIGNMENT cryoSPARC 3.2 FINAL EULER ASSIGNMENT cryoSPARC 3.2 CLASSIFICATION cryoSPARC 3.2 RECONSTRUCTION cryoSPARC 3.2
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details NONE 1363356