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Phycobilisome rod R1 from Gloeobacter violaceus PCC 7421
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.541 r_dihedral_angle_2_deg 16.323 r_dihedral_angle_6_deg 13.613 r_dihedral_angle_1_deg 6.165 r_angle_refined_deg 1.536 r_angle_other_deg 0.525 r_nbd_refined 0.312 r_symmetry_nbd_other 0.222 r_nbtor_refined 0.199 r_xyhbond_nbd_refined 0.183
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.541 r_dihedral_angle_2_deg 16.323 r_dihedral_angle_6_deg 13.613 r_dihedral_angle_1_deg 6.165 r_angle_refined_deg 1.536 r_angle_other_deg 0.525 r_nbd_refined 0.312 r_symmetry_nbd_other 0.222 r_nbtor_refined 0.199 r_xyhbond_nbd_refined 0.183 r_symmetry_xyhbond_nbd_other 0.136 r_ncsr_local_group_70 0.093 r_ncsr_local_group_100 0.093 r_ncsr_local_group_5 0.092 r_ncsr_local_group_11 0.092 r_ncsr_local_group_45 0.092 r_ncsr_local_group_16 0.091 r_ncsr_local_group_51 0.091 r_ncsr_local_group_62 0.091 r_ncsr_local_group_76 0.091 r_ncsr_local_group_130 0.091 r_ncsr_local_group_22 0.09 r_ncsr_local_group_23 0.09 r_ncsr_local_group_91 0.09 r_ncsr_local_group_94 0.09 r_ncsr_local_group_107 0.09 r_ncsr_local_group_77 0.089 r_ncsr_local_group_84 0.089 r_ncsr_local_group_95 0.089 r_ncsr_local_group_97 0.089 r_ncsr_local_group_101 0.089 r_ncsr_local_group_68 0.088 r_ncsr_local_group_90 0.088 r_ncsr_local_group_93 0.088 r_ncsr_local_group_112 0.088 r_ncsr_local_group_128 0.088 r_ncsr_local_group_132 0.088 r_ncsr_local_group_36 0.087 r_ncsr_local_group_42 0.087 r_ncsr_local_group_83 0.087 r_ncsr_local_group_98 0.087 r_ncsr_local_group_120 0.087 r_ncsr_local_group_123 0.087 r_ncsr_local_group_131 0.087 r_ncsr_local_group_2 0.086 r_ncsr_local_group_7 0.086 r_ncsr_local_group_25 0.086 r_ncsr_local_group_29 0.086 r_ncsr_local_group_31 0.086 r_ncsr_local_group_47 0.086 r_ncsr_local_group_99 0.086 r_ncsr_local_group_32 0.085 r_ncsr_local_group_79 0.085 r_ncsr_local_group_115 0.085 r_ncsr_local_group_126 0.085 r_ncsr_local_group_1 0.084 r_ncsr_local_group_24 0.084 r_ncsr_local_group_26 0.084 r_ncsr_local_group_46 0.084 r_ncsr_local_group_54 0.084 r_ncsr_local_group_60 0.084 r_ncsr_local_group_64 0.084 r_ncsr_local_group_27 0.083 r_ncsr_local_group_103 0.083 r_ncsr_local_group_116 0.083 r_ncsr_local_group_4 0.082 r_ncsr_local_group_92 0.082 r_ncsr_local_group_114 0.082 r_ncsr_local_group_30 0.081 r_ncsr_local_group_113 0.081 r_symmetry_nbtor_other 0.079 r_ncsr_local_group_8 0.079 r_ncsr_local_group_10 0.079 r_ncsr_local_group_73 0.078 r_ncsr_local_group_78 0.078 r_ncsr_local_group_124 0.078 r_ncsr_local_group_52 0.077 r_ncsr_local_group_58 0.077 r_ncsr_local_group_104 0.077 r_ncsr_local_group_75 0.076 r_ncsr_local_group_106 0.076 r_ncsr_local_group_129 0.076 r_ncsr_local_group_14 0.075 r_ncsr_local_group_20 0.075 r_ncsr_local_group_43 0.075 r_ncsr_local_group_9 0.074 r_ncsr_local_group_61 0.074 r_ncsr_local_group_67 0.074 r_ncsr_local_group_69 0.074 r_ncsr_local_group_71 0.074 r_ncsr_local_group_81 0.074 r_ncsr_local_group_88 0.074 r_ncsr_local_group_110 0.074 r_ncsr_local_group_127 0.074 r_ncsr_local_group_3 0.073 r_ncsr_local_group_49 0.073 r_ncsr_local_group_44 0.072 r_ncsr_local_group_50 0.072 r_ncsr_local_group_63 0.072 r_ncsr_local_group_105 0.072 r_ncsr_local_group_34 0.07 r_ncsr_local_group_40 0.07 r_ncsr_local_group_65 0.07 r_chiral_restr 0.069 r_ncsr_local_group_72 0.069 r_ncsr_local_group_118 0.069 r_ncsr_local_group_121 0.069 r_ncsr_local_group_80 0.067 r_ncsr_local_group_122 0.067 r_ncsr_local_group_19 0.062 r_ncsr_local_group_13 0.061 r_ncsr_local_group_109 0.061 r_ncsr_local_group_55 0.06 r_ncsr_local_group_12 0.059 r_ncsr_local_group_18 0.059 r_ncsr_local_group_108 0.059 r_ncsr_local_group_37 0.058 r_ncsr_local_group_33 0.057 r_ncsr_local_group_56 0.057 r_ncsr_local_group_39 0.056 r_ncsr_local_group_117 0.056 r_ncsr_local_group_15 0.054 r_ncsr_local_group_21 0.054 r_ncsr_local_group_87 0.053 r_ncsr_local_group_125 0.053 r_ncsr_local_group_53 0.052 r_ncsr_local_group_59 0.052 r_ncsr_local_group_85 0.052 r_ncsr_local_group_111 0.052 r_ncsr_local_group_41 0.048 r_ncsr_local_group_86 0.048 r_ncsr_local_group_119 0.048 r_ncsr_local_group_35 0.047 r_ncsr_local_group_57 0.032 r_ncsr_local_group_48 0.029 r_ncsr_local_group_6 0.028 r_ncsr_local_group_96 0.028 r_ncsr_local_group_28 0.025 r_ncsr_local_group_17 0.015 r_ncsr_local_group_66 0.008 r_gen_planes_refined 0.007 r_ncsr_local_group_82 0.007 r_bond_refined_d 0.006 r_ncsr_local_group_89 0.006 r_ncsr_local_group_38 0.005 r_ncsr_local_group_102 0.005 r_ncsr_local_group_74 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_lrange_it r_lrange_other
Sample Bundle-shaped phycobilisome
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 746972 Reported Resolution (Å) 3.76 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
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 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 66
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 600 Maximum Defocus (nm) 1600 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 0.01 Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification 85000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details Preliminary grid screening was performed manually.
EM Software Task Software Package Version IMAGE ACQUISITION SerialEM 4.04 CTF CORRECTION Warp 1.0.9 FINAL EULER ASSIGNMENT cryoSPARC 4.7 RECONSTRUCTION cryoSPARC 4.7
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details NONE