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Reaction geometry and thermostability mutant of pyranose 2-oxidase from the white-rot fungus Peniophora sp.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 293 19 % PEG 6000, MES/NaOH, pH=6.0, 4% n-Propanol additive, VAPOR DIFFUSION, HANGING DROP, temperature 293K, pH 6.00
Crystal Properties Matthews coefficient Solvent content 2.35 47.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 102.195 α = 90 b = 102.195 β = 90 c = 119.856 γ = 90
Symmetry Space Group P 42 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 MARRESEARCH 2003-10-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 EMBL/DESY, HAMBURG X11
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 1.41 62 97.6 0.058 27 119166 2 15.8
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 1.41 1.45 80 0.38 7.3 14.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.41 62 119166 116780 2384 100 0.149 0.149 0.1599 0.178 0.1886 RANDOM 16.44
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] 0.8 0.8 -1.61
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.999 r_dihedral_angle_4_deg 16.406 r_dihedral_angle_3_deg 12.26 r_dihedral_angle_1_deg 6.917 r_scangle_it 3.24 r_scbond_it 2.334 r_angle_refined_deg 1.605 r_mcangle_it 1.458 r_mcbond_it 1.212 r_angle_other_deg 0.86
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.999 r_dihedral_angle_4_deg 16.406 r_dihedral_angle_3_deg 12.26 r_dihedral_angle_1_deg 6.917 r_scangle_it 3.24 r_scbond_it 2.334 r_angle_refined_deg 1.605 r_mcangle_it 1.458 r_mcbond_it 1.212 r_angle_other_deg 0.86 r_mcbond_other 0.272 r_nbd_refined 0.213 r_symmetry_vdw_refined 0.206 r_nbd_other 0.19 r_symmetry_vdw_other 0.182 r_nbtor_refined 0.18 r_symmetry_hbond_refined 0.14 r_xyhbond_nbd_refined 0.136 r_chiral_restr 0.102 r_nbtor_other 0.09 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_bond_other_d 0.003 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4549 Nucleic Acid Atoms Solvent Atoms 800 Heterogen Atoms 85
Software Software Software Name Purpose REFMAC refinement MAR345 data collection XDS data scaling EPMR phasing