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MprF from Pseudomonas aeruginosa in nanodisc, C2 symmetry
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other D_1300050528
Refinement RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 21.749 r_long_range_B_other 21.749 r_dihedral_angle_3_deg 14.994 r_scangle_other 14.37 r_mcangle_it 13.916 r_mcangle_other 13.916 r_mcbond_it 8.232 r_mcbond_other 8.231 r_scbond_it 7.891 r_scbond_other 7.891
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 21.749 r_long_range_B_other 21.749 r_dihedral_angle_3_deg 14.994 r_scangle_other 14.37 r_mcangle_it 13.916 r_mcangle_other 13.916 r_mcbond_it 8.232 r_mcbond_other 8.231 r_scbond_it 7.891 r_scbond_other 7.891 r_dihedral_angle_1_deg 4.576 r_dihedral_angle_2_deg 2.874 r_angle_refined_deg 0.729 r_angle_other_deg 0.256 r_chiral_restr 0.038 r_gen_planes_refined 0.003 r_bond_refined_d 0.002 r_gen_planes_other 0.001 r_bond_other_d r_dihedral_angle_4_deg r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
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 88069 Reported Resolution (Å) 3.5 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 Refinement Protocol OTHER Refinement Target Overall B Value 155.5 Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON III (4k x 4k) Electron Dose (electrons/Å**2) 26.4
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1500 Maximum Defocus (nm) 3000 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 130481 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION Topaz IMAGE ACQUISITION EPU CTF CORRECTION Gctf 1.06 CTF CORRECTION RELION 4 MODEL FITTING Coot 0.9.8.8 MODEL FITTING UCSF Chimera 1.17.3 INITIAL EULER ASSIGNMENT RELION 4 FINAL EULER ASSIGNMENT cryoSPARC 4.3 CLASSIFICATION cryoSPARC 4.3 RECONSTRUCTION cryoSPARC 4.3 MODEL REFINEMENT PHENIX 1.20.1-4487 MODEL REFINEMENT REFMAC 5.8.0411
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 1701373