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Cryo-EM structure of the microbial rhodopsin CryoR2 at pH 8.0 in detergent
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.298 r_long_range_B_other 13.058 r_long_range_B_refined 13.056 r_scangle_other 10.431 r_mcangle_other 7.826 r_mcangle_it 7.825 r_dihedral_angle_2_deg 7.656 r_scbond_it 6.449 r_scbond_other 6.449 r_dihedral_angle_1_deg 6.231
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.298 r_long_range_B_other 13.058 r_long_range_B_refined 13.056 r_scangle_other 10.431 r_mcangle_other 7.826 r_mcangle_it 7.825 r_dihedral_angle_2_deg 7.656 r_scbond_it 6.449 r_scbond_other 6.449 r_dihedral_angle_1_deg 6.231 r_mcbond_it 5.189 r_mcbond_other 5.188 r_angle_refined_deg 1.653 r_angle_other_deg 0.572 r_chiral_restr 0.074 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 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
Sample Pentameric form of the microbial rhodopsin CryoR2
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 486732 Reported Resolution (Å) 2.44 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 TFS KRIOS Minimum Defocus (nm) 600 Maximum Defocus (nm) 2200 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode OTHER Specimen Holder Model Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version CTF CORRECTION cryoSPARC 4.1.2 INITIAL EULER ASSIGNMENT cryoSPARC 4.1.2 FINAL EULER ASSIGNMENT cryoSPARC 4.1.2 CLASSIFICATION cryoSPARC 4.1.2 RECONSTRUCTION cryoSPARC 4.1.2
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION