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urate oxidase under 0.5 MPa / 5 bars pressure of equimolar mixture xenon : nitrous oxide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2IBA PDB entry 2IBA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 BATCH 8.5 298 10-15 mg.ml-1 urate oxidase; 2mg.ml-1 8-azaxanthine ; 50 mM Tris/HCl pH 8.5; 5-8 % PEG 8000 ; 0-0.05 M NaCl., BATCH, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.98 58.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.298 α = 90 b = 96.263 β = 90 c = 105.493 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 298 IMAGE PLATE MAR scanner 345 mm plate Mirrors 2008-12-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 1.0 ESRF BM14
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 1.6 30 97.9 0.033 37.9 4.6 53013 1
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 1.6 1.66 91.4 0.209 5.4 4.4 4885
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 RIGID BODY THROUGHOUT PDB entry 2IBA 1.6 14.99 50265 2701 97.97 0.17107 0.17013 0.1699 0.1889 0.1881 RANDOM 20.721
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 37.473 r_dihedral_angle_3_deg 11.6 r_dihedral_angle_4_deg 7.651 r_dihedral_angle_1_deg 5.783 r_scangle_it 3.758 r_scbond_it 2.281 r_mcangle_it 1.527 r_angle_refined_deg 1.272 r_mcbond_it 0.787 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.473 r_dihedral_angle_3_deg 11.6 r_dihedral_angle_4_deg 7.651 r_dihedral_angle_1_deg 5.783 r_scangle_it 3.758 r_scbond_it 2.281 r_mcangle_it 1.527 r_angle_refined_deg 1.272 r_mcbond_it 0.787 r_nbtor_refined 0.307 r_nbd_refined 0.198 r_symmetry_vdw_refined 0.169 r_symmetry_hbond_refined 0.124 r_xyhbond_nbd_refined 0.106 r_chiral_restr 0.09 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 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_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 2362 Nucleic Acid Atoms Solvent Atoms 191 Heterogen Atoms 16
Software Software Software Name Purpose HKL-2000 data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling