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urate oxidase under 220 bar (22 MPa) of argon
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2IBA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 BATCH MODE 7.5 291 20 microliter of protein (15 mg/ml) mixed with 20 microliter of solution: buffer (Tris 0.05M /Phosphate 0.05M) + 4% PEG 4000.
Crystal Properties Matthews coefficient Solvent content 2.9 57.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.787 α = 90 b = 95.149 β = 90 c = 104.276 γ = 90
Symmetry Space Group I 2 2 2
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 PILATUS3 S 6M 2017-06-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID30B 1.77 ESRF ID30B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 1.69 70 87.8 0.06 0.016 31.3 12.5 39125
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.69 1.78 36.3 0.172 0.116 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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT 2IBA 1.69 47.62 37292 1831 87.84 0.1494 0.1478 0.1621 0.1824 0.1922 RANDOM 13.696
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.218 r_dihedral_angle_4_deg 18.446 r_dihedral_angle_3_deg 13.928 r_dihedral_angle_1_deg 7.613 r_angle_other_deg 1.455 r_angle_refined_deg 1.392 r_chiral_restr 0.073 r_gen_planes_refined 0.011 r_bond_refined_d 0.008 r_gen_planes_other 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.218 r_dihedral_angle_4_deg 18.446 r_dihedral_angle_3_deg 13.928 r_dihedral_angle_1_deg 7.613 r_angle_other_deg 1.455 r_angle_refined_deg 1.392 r_chiral_restr 0.073 r_gen_planes_refined 0.011 r_bond_refined_d 0.008 r_gen_planes_other 0.003 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2362 Nucleic Acid Atoms Solvent Atoms 454 Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling FFT phasing