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STRUCTURE OF PHOTOSYNTHETIC LH1-RC SUPER-COMPLEX OF THIORHODOVIBRIO STRAIN 970
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5Y5S
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.447 r_long_range_B_refined 22.558 r_dihedral_angle_4_deg 18.662 r_dihedral_angle_3_deg 14.898 r_scbond_it 11.678 r_mcangle_it 11.664 r_mcbond_it 7.627 r_dihedral_angle_1_deg 5.236 r_angle_refined_deg 3.245 r_chiral_restr 0.127
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.447 r_long_range_B_refined 22.558 r_dihedral_angle_4_deg 18.662 r_dihedral_angle_3_deg 14.898 r_scbond_it 11.678 r_mcangle_it 11.664 r_mcbond_it 7.627 r_dihedral_angle_1_deg 5.236 r_angle_refined_deg 3.245 r_chiral_restr 0.127 r_bond_refined_d 0.015 r_gen_planes_refined 0.014 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Sample light-harvesting-reaction center complex from the purple phototrophic bacterium Thiorhodovibrio strain 970
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument LEICA EM GP Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 105234 Reported Resolution (Å) 2.82 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (5Y5S) Refinement Space REAL Refinement Protocol OTHER Refinement Target Correlation coefficient Overall B Value 60 Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON III (4k x 4k) Electron Dose (electrons/Å**2) 40
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) Maximum Defocus (nm) Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION EPU CTF CORRECTION CTFFIND MODEL FITTING UCSF Chimera MODEL REFINEMENT PHENIX MODEL REFINEMENT REFMAC INITIAL EULER ASSIGNMENT EMAN2 FINAL EULER ASSIGNMENT RELION CLASSIFICATION RELION RECONSTRUCTION RELION
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING ONLY 153004