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Human SOD1 G85R Variant, Structure II
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AZV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 2.4 M sodium malonate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.92 35.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.038 α = 90 b = 58.442 β = 90 c = 104.539 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 IMAGE PLATE RIGAKU RAXIS HTC 2003-11-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-D 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) 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 1.9 50 100 0.06 32.8 6.8 20086 20086
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 1.97 100 0.511 5.1 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 1AZV 1.9 33.02 18971 1020 99.96 0.19486 0.19233 0.1902 0.2401 0.2376 RANDOM 31.124
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 -0.02 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.774 r_dihedral_angle_4_deg 18.205 r_dihedral_angle_3_deg 13.188 r_dihedral_angle_1_deg 6.436 r_scangle_it 3.59 r_scbond_it 2.254 r_angle_refined_deg 1.392 r_mcangle_it 1.357 r_mcbond_it 0.923 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.774 r_dihedral_angle_4_deg 18.205 r_dihedral_angle_3_deg 13.188 r_dihedral_angle_1_deg 6.436 r_scangle_it 3.59 r_scbond_it 2.254 r_angle_refined_deg 1.392 r_mcangle_it 1.357 r_mcbond_it 0.923 r_nbtor_refined 0.301 r_symmetry_vdw_refined 0.243 r_nbd_refined 0.201 r_xyhbond_nbd_refined 0.165 r_metal_ion_refined 0.119 r_symmetry_hbond_refined 0.113 r_chiral_restr 0.095 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1913 Nucleic Acid Atoms Solvent Atoms 146 Heterogen Atoms 6
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing