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Crystal structure of Superoxide dismutase from P. Marinus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 1.9 35.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.813 α = 90 b = 62.451 β = 95.54 c = 57.354 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 IMAGE PLATE MARRESEARCH M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU
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 1.86 56.8 95 0.046 5.5 32044 2 2
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) 1.86 1.93 91 0.295 4
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 MOLECULAR REPLACEMENT THROUGHOUT 1.86 56.8 28859 1535 95.23 0.17309 0.17077 0.174 0.2156 0.2182 RANDOM 16.768
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] -0.7 0.18 0.23 0.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.224 r_scangle_it 2.16 r_mcangle_it 1.92 r_scbond_it 1.479 r_angle_refined_deg 1.313 r_mcbond_it 1.161 r_symmetry_vdw_refined 0.418 r_nbd_refined 0.279 r_symmetry_hbond_refined 0.216 r_xyhbond_nbd_refined 0.207
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.224 r_scangle_it 2.16 r_mcangle_it 1.92 r_scbond_it 1.479 r_angle_refined_deg 1.313 r_mcbond_it 1.161 r_symmetry_vdw_refined 0.418 r_nbd_refined 0.279 r_symmetry_hbond_refined 0.216 r_xyhbond_nbd_refined 0.207 r_chiral_restr 0.108 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined 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 3150 Nucleic Acid Atoms Solvent Atoms 409 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement MAR345 data collection SCALEPACK data scaling AMoRE phasing