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1.24 Angstroms resolution structure of Zn-Zn Human Superoxide dismutase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HL5 PDB ENTRY 1HL5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.75 2.5M AMMONIUM SULPHATE,0.1M NACL,50MM ACETATE BUFFER, pH 4.75
Crystal Properties Matthews coefficient Solvent content 2 39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.243 α = 90 b = 67.742 β = 106.44 c = 51.26 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 CCD MARRESEARCH MIRRORS 2003-06-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 ESRF BM14
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.24 30 96 0.06 18 3.2 67983
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.24 1.28 78.4 0.37 2.3 2.2
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 PDB ENTRY 1HL5 1.24 19.9 65893 2061 95.9 0.154 0.152 0.1617 0.194 0.2045 RANDOM 10.82
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] -0.86 0.03 0.07 0.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.256 r_dihedral_angle_3_deg 14.8 r_dihedral_angle_1_deg 13.34 r_dihedral_angle_4_deg 9.233 r_scangle_it 4.468 r_scbond_it 3.501 r_mcangle_it 2.619 r_angle_other_deg 2.248 r_mcbond_it 2.18 r_angle_refined_deg 2.105
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.256 r_dihedral_angle_3_deg 14.8 r_dihedral_angle_1_deg 13.34 r_dihedral_angle_4_deg 9.233 r_scangle_it 4.468 r_scbond_it 3.501 r_mcangle_it 2.619 r_angle_other_deg 2.248 r_mcbond_it 2.18 r_angle_refined_deg 2.105 r_symmetry_vdw_refined 0.308 r_symmetry_hbond_refined 0.272 r_xyhbond_nbd_refined 0.266 r_nbd_refined 0.26 r_symmetry_vdw_other 0.221 r_nbd_other 0.21 r_nbtor_refined 0.171 r_chiral_restr 0.127 r_nbtor_other 0.099 r_bond_refined_d 0.021 r_gen_planes_refined 0.01 r_gen_planes_other 0.003 r_bond_other_d 0.002 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2222 Nucleic Acid Atoms Solvent Atoms 507 Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing