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Cryo-EM Structure of Na-dithionite Reduced Membrane-bound Fructose Dehydrogenase from Gluconobacter japonicus
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 11.337 f_angle_d 0.71 f_chiral_restr 0.047 f_plane_restr 0.007 f_bond_d 0.003
Sample D-fructose dehydrogenase from Gluconobacter japonicus
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 315288 Reported Resolution (Å) 2.5 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 80
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model JEOL CRYO ARM 300 Minimum Defocus (nm) 500 Maximum Defocus (nm) 2500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model JEOL CRYOSPECPORTER Nominal Magnification 60000 Calibrated Magnification 56754 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 3.3.2 IMAGE ACQUISITION SerialEM 3.9 CTF CORRECTION cryoSPARC 3.3.2 MODEL FITTING Coot MODEL REFINEMENT PHENIX INITIAL EULER ASSIGNMENT cryoSPARC 3.3.2 FINAL EULER ASSIGNMENT cryoSPARC 3.3.2 CLASSIFICATION cryoSPARC 3.3.2 RECONSTRUCTION cryoSPARC 3.3.2
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 1013610