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Crystal structure of uricase from Arthrobacter globiformis in complex with allantoate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UOX PDB entry 1uox
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 293 PEG8000, lithium sulfate, sodium borate buffer, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.76 55.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.498 α = 90 b = 122.942 β = 90 c = 284.784 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 210 2004-10-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.00 Photon Factory AR-NW12A
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 1.88 50 95.2 0.076 6.1 231814
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) 1.88 1.95 83.9 0.236 5.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 PDB entry 1uox 1.88 20 3 220001 11617 95.64 0.16117 0.15938 0.1802 0.19484 0.2048 RANDOM 27.551
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] 1.68 0.04 -1.72
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 10.055 r_scbond_it 7.766 r_dihedral_angle_1_deg 6.991 r_mcangle_it 4.648 r_mcbond_it 3.397 r_angle_refined_deg 1.781 r_chiral_restr 0.273 r_nbd_refined 0.212 r_symmetry_vdw_refined 0.182 r_symmetry_hbond_refined 0.144
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 10.055 r_scbond_it 7.766 r_dihedral_angle_1_deg 6.991 r_mcangle_it 4.648 r_mcbond_it 3.397 r_angle_refined_deg 1.781 r_chiral_restr 0.273 r_nbd_refined 0.212 r_symmetry_vdw_refined 0.182 r_symmetry_hbond_refined 0.144 r_xyhbond_nbd_refined 0.138 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 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 18248 Nucleic Acid Atoms Solvent Atoms 1990 Heterogen Atoms 96
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling AMoRE phasing