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Urate oxidase co-crystallized with uric acid and azide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3L8W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 291 MIXING TWO SOLUTIONS A AND B: SOLUTION A: PROTEIN AT 20MG/ML IN 50MM TRIS-ACETATE BUFFER, + 0.3M SODIUM AZIDE SATURATED BY URIC ACID (IN PRESENCE OF THE SOLID), PH 8.5 SOLUTION B: PEG-8000 18% IN TRIS BUFFER, BATCH METHOD, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.81 57.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.524 α = 90 b = 95.24 β = 90 c = 104.577 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 PILATUS 6M BENT MIRROR 2014-01-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 ESRF ID23-1
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 1.05 47.6 99.3 0.068 4.4 148909 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 1.05 1.12 54.8 0.325 2 3.15
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS 3L8W 1.07 47 4 172500 148909 85.7 0.185 0.185
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 4 2299 2669.5
RMS Deviations Key Refinement Restraint Deviation s_from_restr_planes 0.406 s_non_zero_chiral_vol 0.092 s_approx_iso_adps 0.088 s_anti_bump_dis_restr 0.082 s_angle_d 0.076 s_zero_chiral_vol 0.075 s_similar_adp_cmpnt 0.038 s_bond_d 0.03 s_similar_dist s_rigid_bond_adp_cmpnt
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2362 Nucleic Acid Atoms Solvent Atoms 308 Heterogen Atoms 7
Software Software Software Name Purpose DNA data collection SHELX model building SHELXL-97 refinement XDS data reduction SCALA data scaling TRUNCATE data scaling SHELX phasing