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Cryo-EM structure of the microbial rhodopsin CryoR1 at pH 8.0 in nanodisc
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.087 r_long_range_B_refined 11.904 r_long_range_B_other 11.894 r_dihedral_angle_2_deg 11.674 r_scangle_other 9.358 r_mcangle_it 7.402 r_mcangle_other 7.402 r_dihedral_angle_1_deg 5.719 r_scbond_it 5.689 r_scbond_other 5.688
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.087 r_long_range_B_refined 11.904 r_long_range_B_other 11.894 r_dihedral_angle_2_deg 11.674 r_scangle_other 9.358 r_mcangle_it 7.402 r_mcangle_other 7.402 r_dihedral_angle_1_deg 5.719 r_scbond_it 5.689 r_scbond_other 5.688 r_mcbond_it 4.8 r_mcbond_other 4.8 r_angle_refined_deg 1.393 r_angle_other_deg 0.465 r_chiral_restr 0.072 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 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 218132 Reported Resolution (Å) 2.43 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) 800 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 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