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Cation channelrhodopsin from Hyphochytrium catenoides (HcCCR) embedded in peptidisc
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 15.423 f_angle_d 0.4463 f_chiral_restr 0.0323 f_plane_restr 0.0032 f_bond_d 0.0028
Sample Cation channelrhodopsin trimer reconstituted in peptidisc
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 298957 Reported Resolution (Å) 2.84 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C3
Map-Model Fitting and Refinement Id 1 Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Cross correlation coefficent Overall B Value 151.1 Fitting Procedure Details Initial fitting done in Phenix
Data Acquisition Detector Type OTHER Electron Dose (electrons/Å**2) 40
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 800 Maximum Defocus (nm) 2400 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 75000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 4.1 IMAGE ACQUISITION EPU CTF CORRECTION cryoSPARC 4.1 MODEL FITTING PHENIX 1.20 INITIAL EULER ASSIGNMENT cryoSPARC 4.1 FINAL EULER ASSIGNMENT cryoSPARC 4.1 CLASSIFICATION cryoSPARC 4.1 RECONSTRUCTION cryoSPARC 4.1 MODEL REFINEMENT PHENIX 1.20
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION CTF estimation done in cryoSPARC v4.1 2674318 Blob picking was performed on a subset of micrographs for generating templates for template picking.