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Phycobilisome rod R2 from Gloeobacter violaceus PCC 7421
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.86 r_dihedral_angle_2_deg 15.698 r_dihedral_angle_6_deg 13.903 r_dihedral_angle_1_deg 6.148 r_lrange_it 4.476 r_lrange_other 4.476 r_scangle_it 2.758 r_scangle_other 2.758 r_mcangle_it 2.514 r_mcangle_other 2.514
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.86 r_dihedral_angle_2_deg 15.698 r_dihedral_angle_6_deg 13.903 r_dihedral_angle_1_deg 6.148 r_lrange_it 4.476 r_lrange_other 4.476 r_scangle_it 2.758 r_scangle_other 2.758 r_mcangle_it 2.514 r_mcangle_other 2.514 r_angle_refined_deg 1.737 r_scbond_it 1.54 r_scbond_other 1.54 r_mcbond_it 1.516 r_mcbond_other 1.516 r_angle_other_deg 0.666 r_nbd_refined 0.318 r_symmetry_nbd_other 0.223 r_nbtor_refined 0.208 r_xyhbond_nbd_refined 0.178 r_symmetry_xyhbond_nbd_other 0.152 r_ncsr_local_group_91 0.105 r_ncsr_local_group_5 0.104 r_ncsr_local_group_107 0.104 r_ncsr_local_group_26 0.103 r_ncsr_local_group_27 0.102 r_ncsr_local_group_62 0.102 r_ncsr_local_group_94 0.102 r_ncsr_local_group_77 0.101 r_ncsr_local_group_93 0.101 r_ncsr_local_group_95 0.101 r_ncsr_local_group_45 0.1 r_ncsr_local_group_11 0.099 r_ncsr_local_group_32 0.097 r_ncsr_local_group_68 0.097 r_ncsr_local_group_1 0.096 r_ncsr_local_group_31 0.096 r_ncsr_local_group_25 0.095 r_ncsr_local_group_128 0.095 r_ncsr_local_group_51 0.094 r_ncsr_local_group_92 0.094 r_ncsr_local_group_131 0.094 r_ncsr_local_group_83 0.093 r_ncsr_local_group_103 0.093 r_ncsr_local_group_123 0.093 r_ncsr_local_group_23 0.092 r_ncsr_local_group_29 0.092 r_ncsr_local_group_24 0.09 r_ncsr_local_group_30 0.09 r_ncsr_local_group_70 0.089 r_ncsr_local_group_76 0.089 r_ncsr_local_group_115 0.089 r_ncsr_local_group_16 0.088 r_ncsr_local_group_22 0.088 r_ncsr_local_group_79 0.088 r_ncsr_local_group_100 0.088 r_ncsr_local_group_106 0.088 r_ncsr_local_group_130 0.088 r_ncsr_local_group_46 0.087 r_ncsr_local_group_78 0.087 r_ncsr_local_group_97 0.087 r_ncsr_local_group_112 0.087 r_ncsr_local_group_7 0.086 r_ncsr_local_group_104 0.086 r_ncsr_local_group_116 0.086 r_symmetry_nbtor_other 0.084 r_ncsr_local_group_42 0.084 r_ncsr_local_group_54 0.084 r_ncsr_local_group_60 0.084 r_ncsr_local_group_98 0.084 r_ncsr_local_group_10 0.083 r_ncsr_local_group_36 0.083 r_ncsr_local_group_64 0.083 r_ncsr_local_group_84 0.083 r_ncsr_local_group_90 0.083 r_ncsr_local_group_99 0.083 r_ncsr_local_group_101 0.083 r_ncsr_local_group_114 0.083 r_ncsr_local_group_120 0.083 r_ncsr_local_group_126 0.083 r_ncsr_local_group_132 0.083 r_ncsr_local_group_2 0.082 r_ncsr_local_group_4 0.082 r_ncsr_local_group_47 0.082 r_ncsr_local_group_113 0.082 r_ncsr_local_group_8 0.08 r_ncsr_local_group_63 0.079 r_ncsr_local_group_105 0.079 r_ncsr_local_group_52 0.077 r_ncsr_local_group_58 0.077 r_ncsr_local_group_67 0.077 r_ncsr_local_group_73 0.077 r_ncsr_local_group_81 0.077 r_ncsr_local_group_124 0.077 r_ncsr_local_group_127 0.077 r_ncsr_local_group_61 0.076 r_ncsr_local_group_14 0.075 r_ncsr_local_group_71 0.075 r_ncsr_local_group_20 0.074 r_ncsr_local_group_75 0.074 r_ncsr_local_group_110 0.074 r_ncsr_local_group_3 0.073 r_ncsr_local_group_9 0.073 r_ncsr_local_group_43 0.073 r_ncsr_local_group_49 0.073 r_ncsr_local_group_65 0.073 r_ncsr_local_group_69 0.073 r_ncsr_local_group_88 0.073 r_ncsr_local_group_121 0.073 r_ncsr_local_group_129 0.073 r_ncsr_local_group_72 0.072 r_ncsr_local_group_118 0.071 r_chiral_restr 0.07 r_ncsr_local_group_34 0.07 r_ncsr_local_group_40 0.07 r_ncsr_local_group_50 0.07 r_ncsr_local_group_44 0.069 r_ncsr_local_group_80 0.068 r_ncsr_local_group_122 0.068 r_ncsr_local_group_55 0.059 r_ncsr_local_group_109 0.059 r_ncsr_local_group_13 0.058 r_ncsr_local_group_18 0.058 r_ncsr_local_group_19 0.058 r_ncsr_local_group_37 0.058 r_ncsr_local_group_96 0.058 r_ncsr_local_group_108 0.058 r_ncsr_local_group_12 0.057 r_ncsr_local_group_117 0.056 r_ncsr_local_group_39 0.055 r_ncsr_local_group_56 0.055 r_ncsr_local_group_33 0.054 r_ncsr_local_group_28 0.053 r_ncsr_local_group_85 0.053 r_ncsr_local_group_111 0.053 r_ncsr_local_group_15 0.052 r_ncsr_local_group_21 0.052 r_ncsr_local_group_59 0.048 r_ncsr_local_group_41 0.047 r_ncsr_local_group_53 0.047 r_ncsr_local_group_86 0.047 r_ncsr_local_group_87 0.047 r_ncsr_local_group_119 0.047 r_ncsr_local_group_125 0.047 r_ncsr_local_group_35 0.046 r_ncsr_local_group_6 0.045 r_ncsr_local_group_48 0.011 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 r_ncsr_local_group_74 0.007 r_ncsr_local_group_102 0.007 r_ncsr_local_group_17 0.006 r_ncsr_local_group_57 0.006 r_ncsr_local_group_66 0.006 r_ncsr_local_group_82 0.006 r_ncsr_local_group_89 0.006 r_ncsr_local_group_38 0.005 r_gen_planes_other 0.004 r_bond_other_d 0.001
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 207644 Reported Resolution (Å) 2.95 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