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Human Cys57/156Ala superoxide dismutase-1 (SOD1), as isolated.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2C9V
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 0.2 M Lithium sulphate
24% w/v PEG 4000
0.1 M Tris-HCl pH 8.0
Crystal Properties Matthews coefficient Solvent content 2.77 55.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.65 α = 90 b = 162.959 β = 90 c = 174.601 γ = 90
Symmetry Space Group P 21 21 21
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 6M 2017-09-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03
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 2 81.48 100 0.084 0.102 0.056 0.998 12.3 6.1 144348 27.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.03 100 0.832 0.101 0.783 1.9 5.7
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 2c9v 2 81.48 136979 7261 99.98 0.2227 0.22076 0.2269 0.25941 0.2634 RANDOM 44.674
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] -0.91 2.34 -1.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40 r_dihedral_angle_4_deg 12.582 r_dihedral_angle_3_deg 11.013 r_long_range_B_refined 7.12 r_long_range_B_other 7.036 r_dihedral_angle_1_deg 6.179 r_angle_refined_deg 1.149 r_angle_other_deg 0.841 r_scbond_it 0.166 r_mcangle_it 0.152
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40 r_dihedral_angle_4_deg 12.582 r_dihedral_angle_3_deg 11.013 r_long_range_B_refined 7.12 r_long_range_B_other 7.036 r_dihedral_angle_1_deg 6.179 r_angle_refined_deg 1.149 r_angle_other_deg 0.841 r_scbond_it 0.166 r_mcangle_it 0.152 r_mcangle_other 0.152 r_scangle_other 0.135 r_scbond_other 0.113 r_mcbond_it 0.083 r_mcbond_other 0.083 r_chiral_restr 0.064 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13259 Nucleic Acid Atoms Solvent Atoms 1064 Heterogen Atoms 77
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction Aimless data scaling MOLREP phasing