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M117L variant of Cu/Zn-superoxide dismutase from dog (Canis familiaris)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 20% PEG 3350, 0.2M Sodium malonate, pH 7.0
Crystal Properties Matthews coefficient Solvent content 2.85 56.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.643 α = 90 b = 50.643 β = 90 c = 282.12 γ = 90
Symmetry Space Group P 41 21 2
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 EIGER X 16M 2021-08-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.275 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 1.5 49.85 99.5 1 27 32.3 60359
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 1.58 0.533
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 1.5 47.71 57102 3102 99.46 0.25725 0.25553 0.2628 0.2874 0.2959 RANDOM 29.788
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] 0.81 0.81 -1.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.136 r_dihedral_angle_3_deg 13.096 r_dihedral_angle_4_deg 10.393 r_dihedral_angle_1_deg 7.898 r_long_range_B_refined 6.348 r_long_range_B_other 6.33 r_scangle_other 4.644 r_mcangle_it 3.864 r_mcangle_other 3.862 r_scbond_it 3.217
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.136 r_dihedral_angle_3_deg 13.096 r_dihedral_angle_4_deg 10.393 r_dihedral_angle_1_deg 7.898 r_long_range_B_refined 6.348 r_long_range_B_other 6.33 r_scangle_other 4.644 r_mcangle_it 3.864 r_mcangle_other 3.862 r_scbond_it 3.217 r_scbond_other 3.216 r_mcbond_it 2.793 r_mcbond_other 2.785 r_angle_refined_deg 1.771 r_angle_other_deg 1.391 r_chiral_restr 0.078 r_bond_refined_d 0.012 r_gen_planes_refined 0.01 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 2218 Nucleic Acid Atoms Solvent Atoms 220 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling CRANK2 phasing