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Urate oxidase from Aspergillus flavus complexed with its inhibitor 8-azaxanthine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1R51 PDB ENTRY 1R51
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 298 10MG/ML URATE OXIDASE, 8-AZAXANTHINE 0.2MG/ML, TRIS 20mM, PEG 8000 7%, NACL 200mM, batch, TEMPERATURE 298K, PH 8.5
Crystal Properties Matthews coefficient Solvent content 2.98 58.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.492 α = 90 b = 96.041 β = 90 c = 105.343 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 277 CCD MARRESEARCH 2005-11-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 0.972 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 1.5 50 91.1 0.056 10.8 5.4 65481 59653 1 1 18.06
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 1.5 1.55 87.9 0.271 2.8 5710
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 1R51 1.5 14.87 59516 3021 90.99 0.177 0.176 0.1754 0.197 0.1966 RANDOM 20.872
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 37.722 r_dihedral_angle_3_deg 12.491 r_dihedral_angle_4_deg 8.661 r_dihedral_angle_1_deg 5.908 r_scangle_it 3.564 r_scbond_it 2.165 r_mcangle_it 1.5 r_angle_refined_deg 1.408 r_mcbond_it 0.788 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.722 r_dihedral_angle_3_deg 12.491 r_dihedral_angle_4_deg 8.661 r_dihedral_angle_1_deg 5.908 r_scangle_it 3.564 r_scbond_it 2.165 r_mcangle_it 1.5 r_angle_refined_deg 1.408 r_mcbond_it 0.788 r_nbtor_refined 0.307 r_symmetry_vdw_refined 0.206 r_nbd_refined 0.201 r_symmetry_hbond_refined 0.129 r_xyhbond_nbd_refined 0.094 r_chiral_restr 0.088 r_metal_ion_refined 0.066 r_bond_refined_d 0.01 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2362 Nucleic Acid Atoms Solvent Atoms 209 Heterogen Atoms 12
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection