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A4V mutant of human SOD1 bound with 2-(pyridin-3-ylmethyl)benzoisoselenazolone derivative 10 in P21 space group
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UXM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.7 292 100mM NaOAc pH 4.7, 150mM NaCl, 2.7M ammonium sulphate
Crystal Properties Matthews coefficient Solvent content 2.01 38.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.411 α = 90 b = 68.002 β = 106.235 c = 50.903 γ = 90
Symmetry Space Group P 1 21 1
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 PILATUS 6M-F mirrors 2020-02-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.9686 Diamond I04-1
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 1.55 36.88 99.7 0.065 0.089 0.061 0.992 8.5 3.1 36425 16.089
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 1.55 1.58 99.7 0.422 0.571 0.381 0.798 2 3.1
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1UXM 1.55 36.88 36381 1810 99.63 0.196 0.1949 0.1956 0.2078 0.2083 22.696
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] 1.203 -0.068 -0.925 -0.204
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.693 r_dihedral_angle_4_deg 20.047 r_dihedral_angle_3_deg 13.995 r_dihedral_angle_1_deg 7.014 r_lrange_it 6.2 r_scangle_it 5.034 r_scbond_it 3.431 r_mcangle_it 3.309 r_mcbond_it 2.317 r_angle_refined_deg 1.682
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.693 r_dihedral_angle_4_deg 20.047 r_dihedral_angle_3_deg 13.995 r_dihedral_angle_1_deg 7.014 r_lrange_it 6.2 r_scangle_it 5.034 r_scbond_it 3.431 r_mcangle_it 3.309 r_mcbond_it 2.317 r_angle_refined_deg 1.682 r_nbtor_refined 0.313 r_symmetry_nbd_refined 0.309 r_nbd_refined 0.233 r_metal_ion_refined 0.231 r_symmetry_xyhbond_nbd_refined 0.168 r_xyhbond_nbd_refined 0.129 r_chiral_restr 0.122 r_ncsr_local_group_1 0.108 r_bond_refined_d 0.01 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2207 Nucleic Acid Atoms Solvent Atoms 190 Heterogen Atoms 49
Software Software Software Name Purpose REFMAC refinement DIALS data reduction Aimless data scaling MOLREP phasing