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G93A mutant of human SOD1 bound with MR6-26-2 in P21 space group
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2WKO
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 38.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.54 α = 90 b = 68.478 β = 105.024 c = 49.965 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 EIGER2 X 9M 2021-01-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.9800 Diamond I24
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 1.5 48.303 99.1 0.052 0.072 0.049 0.994 9.4 2.9 40225
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 1.5 1.53 88.6 0.301 0.415 0.284 0.848 2.1 2.1
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 2WKO 1.5 48.303 39919 1981 99.296 0.188 0.1862 0.1869 0.2236 0.2256 17.367
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] 0.138 -0.504 -0.313 0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.778 r_dihedral_angle_other_3_deg 24.553 r_dihedral_angle_3_deg 12.528 r_dihedral_angle_4_deg 11.054 r_dihedral_angle_1_deg 7.276 r_lrange_it 5.298 r_lrange_other 5.214 r_scangle_other 3.482 r_scangle_it 3.48 r_mcangle_it 2.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.778 r_dihedral_angle_other_3_deg 24.553 r_dihedral_angle_3_deg 12.528 r_dihedral_angle_4_deg 11.054 r_dihedral_angle_1_deg 7.276 r_lrange_it 5.298 r_lrange_other 5.214 r_scangle_other 3.482 r_scangle_it 3.48 r_mcangle_it 2.41 r_mcangle_other 2.41 r_scbond_it 2.265 r_scbond_other 2.264 r_angle_refined_deg 1.55 r_mcbond_it 1.464 r_mcbond_other 1.463 r_angle_other_deg 1.459 r_metal_ion_refined 0.386 r_symmetry_nbd_refined 0.267 r_symmetry_xyhbond_nbd_refined 0.228 r_nbd_other 0.226 r_nbd_refined 0.211 r_symmetry_nbd_other 0.179 r_nbtor_refined 0.155 r_xyhbond_nbd_refined 0.152 r_symmetry_nbtor_other 0.078 r_ncsr_local_group_1 0.074 r_chiral_restr 0.069 r_bond_refined_d 0.014 r_symmetry_xyhbond_nbd_other 0.011 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2195 Nucleic Acid Atoms Solvent Atoms 223 Heterogen Atoms 56
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction Aimless data scaling MOLREP phasing