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Cryo-EM structure of the light-driven sodium pump ErNaR in the pentameric form at pH 8.0
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.914 r_long_range_B_refined 9.285 r_long_range_B_other 9.284 r_dihedral_angle_2_deg 9.075 r_scangle_other 7.69 r_dihedral_angle_1_deg 5.288 r_scbond_it 4.624 r_scbond_other 4.624 r_mcangle_it 4.384 r_mcangle_other 4.384
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.914 r_long_range_B_refined 9.285 r_long_range_B_other 9.284 r_dihedral_angle_2_deg 9.075 r_scangle_other 7.69 r_dihedral_angle_1_deg 5.288 r_scbond_it 4.624 r_scbond_other 4.624 r_mcangle_it 4.384 r_mcangle_other 4.384 r_mcbond_it 2.923 r_mcbond_other 2.906 r_angle_refined_deg 1.48 r_angle_other_deg 0.51 r_chiral_restr 0.078 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_gen_planes_other 0.002 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
Sample Light-driven sodium pump ErNaR
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 437017 Reported Resolution (Å) 2.63 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C5
Map-Model Fitting and Refinement Id 1 Refinement Space Refinement Protocol Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 50
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 500 Maximum Defocus (nm) 2000 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode OTHER Specimen Holder Model Nominal Magnification 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 4.0.2 CTF CORRECTION cryoSPARC 4.0.2 INITIAL EULER ASSIGNMENT cryoSPARC 4.0.2 FINAL EULER ASSIGNMENT cryoSPARC 4.0.2 CLASSIFICATION cryoSPARC 4.0.2 RECONSTRUCTION cryoSPARC 4.0.2
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION