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Crystal structure, recombinant expression and mutagenesis studies of the bifunctional catalase-phenol oxidase from Scytalidium thermophilum
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2IUF PDB ENTRY 2IUF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.8 PROTEIN CRYSTAL WAS OBTAINED IN 22% PEG-2000 AT PH 6.8 100MM BIS-TRIS BUFFER WITH 0.1M BARIUM CHLORIDE
Crystal Properties Matthews coefficient Solvent content 2.18 43.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 185.447 α = 90 b = 216.342 β = 90 c = 68.607 γ = 90
Symmetry Space Group P 21 21 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 CCD 2009-02-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 Diamond I03
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 2.7 45.93 99.9 0.1 13.3 6.5 76826 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 2.7 2.85 100 0.45 4 6.6
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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2IUF 2.7 141.42 72876 3852 99.83 0.19522 0.19228 0.188 0.25118 0.245 RANDOM 49.111
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 -2.52 1.52
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.436 r_dihedral_angle_4_deg 17.807 r_dihedral_angle_3_deg 14.802 r_dihedral_angle_1_deg 5.991 r_angle_refined_deg 1.62 r_chiral_restr 0.091 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.436 r_dihedral_angle_4_deg 17.807 r_dihedral_angle_3_deg 14.802 r_dihedral_angle_1_deg 5.991 r_angle_refined_deg 1.62 r_chiral_restr 0.091 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 20887 Nucleic Acid Atoms Solvent Atoms 316 Heterogen Atoms 471
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling