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Cryo-EM structure of the microbial rhodopsin CryoR1 at pH 10.5 in detergent in the M state
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.627 r_long_range_B_refined 10.446 r_long_range_B_other 10.415 r_dihedral_angle_2_deg 9.219 r_scangle_other 8.41 r_mcangle_other 5.659 r_mcangle_it 5.658 r_scbond_it 5.457 r_scbond_other 5.456 r_dihedral_angle_1_deg 4.912
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.627 r_long_range_B_refined 10.446 r_long_range_B_other 10.415 r_dihedral_angle_2_deg 9.219 r_scangle_other 8.41 r_mcangle_other 5.659 r_mcangle_it 5.658 r_scbond_it 5.457 r_scbond_other 5.456 r_dihedral_angle_1_deg 4.912 r_mcbond_it 3.91 r_mcbond_other 3.91 r_angle_refined_deg 1.457 r_angle_other_deg 0.481 r_chiral_restr 0.076 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 Pentameric form of the microbial rhodopsin CryoR1
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 541978 Reported Resolution (Å) 2.3 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) 1200 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 PARTICLE SELECTION cryoSPARC 4.1.2 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