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CryoEM structure of quinol-dependent Nitric Oxide Reductase (qNOR) from Alcaligenes xylosoxidans at 2.2 A resolution
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.71 r_dihedral_angle_3_deg 16.396 r_dihedral_angle_4_deg 16.157 r_lrange_it 13.388 r_lrange_other 13.388 r_scangle_it 9.63 r_scangle_other 9.629 r_mcangle_it 8.426 r_mcangle_other 8.425 r_dihedral_angle_1_deg 6.941
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.71 r_dihedral_angle_3_deg 16.396 r_dihedral_angle_4_deg 16.157 r_lrange_it 13.388 r_lrange_other 13.388 r_scangle_it 9.63 r_scangle_other 9.629 r_mcangle_it 8.426 r_mcangle_other 8.425 r_dihedral_angle_1_deg 6.941 r_scbond_it 6.601 r_scbond_other 6.601 r_mcbond_it 6.187 r_mcbond_other 6.187 r_angle_refined_deg 1.672 r_angle_other_deg 1.381 r_nbd_refined 0.212 r_xyhbond_nbd_refined 0.196 r_nbtor_refined 0.191 r_symmetry_nbd_other 0.187 r_chiral_restr 0.092 r_symmetry_nbtor_other 0.084 r_ncsr_local_group_1 0.045 r_symmetry_xyhbond_nbd_other 0.041 r_bond_refined_d 0.012 r_gen_planes_refined 0.011 r_gen_planes_other 0.006 r_bond_other_d
Sample quinol-dependent Nitric Oxide Reductase
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details Sample at 3 mg/mL was applied to glow-discharged Quantifoil Au R1.2/1.3 holey carbo grids
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 404950 Reported Resolution (Å) 2.2 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C2
Map-Model Fitting and Refinement Id 1 Refinement Space RECIPROCAL Refinement Protocol RIGID BODY FIT Refinement Target Cross-correlation coefficient Overall B Value 47 Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON IV (4k x 4k) Electron Dose (electrons/Å**2) 34.9
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 900 Maximum Defocus (nm) 2700 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 130000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION crYOLO 1.6.1 IMAGE ACQUISITION EPU 2.14 CTF CORRECTION CTFFIND 4.1 MODEL FITTING MOLREP 11.06.04 MODEL REFINEMENT REFMAC 5.8.0267 MODEL REFINEMENT PHENIX 1.2 INITIAL EULER ASSIGNMENT RELION 3.1 FINAL EULER ASSIGNMENT RELION 3.1 CLASSIFICATION RELION 3.1 RECONSTRUCTION RELION 3.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 3000000