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Recombinant oxalate oxidase in complex with glycolate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FI2 PDB ENTRY 1FI2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 298 10% PEG4000, 0.1M sodium acetate pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.85 68.06
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 250.434 α = 90 b = 250.434 β = 90 c = 250.434 γ = 90
Symmetry Space Group F 4 3 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 CCD ADSC QUANTUM 4 2005-02-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX14.1 1.488 SRS PX14.1
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 1.75 30 100 0.073 33 14 67848 67848
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 1.75 1.81 100 0.284 10 13
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 1FI2 1.75 30 64382 64382 3436 99.94 0.1821 0.18146 0.1815 0.19367 0.1833 RANDOM 15.519
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 34.638 r_dihedral_angle_4_deg 16.615 r_dihedral_angle_3_deg 12.793 r_dihedral_angle_1_deg 6.303 r_scangle_it 2.203 r_scbond_it 1.36 r_angle_refined_deg 1.207 r_mcangle_it 0.805 r_mcbond_it 0.494 r_nbtor_refined 0.299
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.638 r_dihedral_angle_4_deg 16.615 r_dihedral_angle_3_deg 12.793 r_dihedral_angle_1_deg 6.303 r_scangle_it 2.203 r_scbond_it 1.36 r_angle_refined_deg 1.207 r_mcangle_it 0.805 r_mcbond_it 0.494 r_nbtor_refined 0.299 r_nbd_refined 0.195 r_symmetry_vdw_refined 0.184 r_symmetry_hbond_refined 0.123 r_xyhbond_nbd_refined 0.096 r_chiral_restr 0.091 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 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 2980 Nucleic Acid Atoms Solvent Atoms 308 Heterogen Atoms 40
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement