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Cryo-EM structure of OmcZ nanowire from Geobacter sulfurreducens
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 21.826 f_angle_d 1.297 f_chiral_restr 0.067 f_bond_d 0.013 f_plane_restr 0.009
Sample Polymerized cytochrome OmcZ from Geobacter sulfurreducens
Specimen Preparation Sample Aggregation State FILAMENT Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method HELICAL Number of Particles 128409 Reported Resolution (Å) 3.4 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type HELICAL Axial Symmetry C1 Axial Rise 57.8 Angular Rotation -159.1
Map-Model Fitting and Refinement Id 1 Refinement Space REAL Refinement Protocol AB INITIO MODEL Refinement Target Correlation coefficient Overall B Value Fitting Procedure Details Initial fitting was done with Chimera and refinement was done in Phenix
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 1.2
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 2500 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 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION SerialEM CTF CORRECTION Gctf 1.08 MODEL FITTING UCSF Chimera 1.14 INITIAL EULER ASSIGNMENT RELION 3.08 FINAL EULER ASSIGNMENT RELION 3.08 RECONSTRUCTION RELION 3.08 MODEL REFINEMENT PHENIX dev_3689
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION