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Monomeric Human Cu,Zn Superoxide dismutase, SOD1 7+7, apo form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4BCZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 0.1 M sodium acetate pH 4.6 and 2 M ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 3.74 67.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.214 α = 90 b = 83.214 β = 90 c = 133.478 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS3 S 6M 2016-07-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2) 0.9763 PETRA III, EMBL c/o DESY P14 (MX2)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.79 63.41 98.7 0.084 0.088 0.028 0.999 20.1 9.6 16779
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.79 1.83 80.6 0.782 0.844 0.309 0.718 6.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4BCZ 1.79 63.41 15915 863 98.71 0.1712 0.1698 0.1806 0.1966 0.2075 RANDOM 31.433
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 0.01 0.01 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.661 r_dihedral_angle_4_deg 23.451 r_dihedral_angle_3_deg 16.503 r_dihedral_angle_1_deg 6.756 r_angle_refined_deg 2.363 r_angle_other_deg 1.19 r_chiral_restr 0.164 r_bond_refined_d 0.025 r_gen_planes_refined 0.012 r_bond_other_d 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.661 r_dihedral_angle_4_deg 23.451 r_dihedral_angle_3_deg 16.503 r_dihedral_angle_1_deg 6.756 r_angle_refined_deg 2.363 r_angle_other_deg 1.19 r_chiral_restr 0.164 r_bond_refined_d 0.025 r_gen_planes_refined 0.012 r_bond_other_d 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 837 Nucleic Acid Atoms Solvent Atoms 94 Heterogen Atoms 11
Software Software Software Name Purpose Aimless data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction XDS data reduction