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Pyranose 2-oxidase F454N mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2IGO pdb entry 2IGO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.2 298 0.1M MES, 50MM MGCL2, 10% (W/V)% MONOMETHYLETHER PEG 2000, pH 5.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.25 45.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 102.059 α = 90 b = 102.059 β = 90 c = 119.693 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 MIRRORS 2008-12-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I911-2 1.0379 MAX II I911-2
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 1.6 30 99.9 0.1 18.1 12.9 83548 83548
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 1.6 1.7 99.6 0.86 3.1 9.9 13637
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 (All) 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 2IGO 1.6 30 81587 81587 1961 99.88 0.18556 0.18556 0.18488 0.1929 0.2129 0.2192 RANDOM 12.416
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] -0.49 -0.49 0.97
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.291 r_dihedral_angle_4_deg 16.281 r_dihedral_angle_3_deg 12.474 r_dihedral_angle_1_deg 6.871 r_scangle_it 3.699 r_scbond_it 2.739 r_angle_refined_deg 1.841 r_mcangle_it 1.663 r_mcbond_it 1.426 r_angle_other_deg 1.011
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.291 r_dihedral_angle_4_deg 16.281 r_dihedral_angle_3_deg 12.474 r_dihedral_angle_1_deg 6.871 r_scangle_it 3.699 r_scbond_it 2.739 r_angle_refined_deg 1.841 r_mcangle_it 1.663 r_mcbond_it 1.426 r_angle_other_deg 1.011 r_mcbond_other 0.363 r_symmetry_vdw_other 0.261 r_symmetry_vdw_refined 0.252 r_nbd_refined 0.235 r_xyhbond_nbd_other 0.223 r_nbd_other 0.213 r_nbtor_refined 0.185 r_chiral_restr 0.161 r_xyhbond_nbd_refined 0.156 r_symmetry_hbond_refined 0.119 r_nbtor_other 0.092 r_bond_refined_d 0.02 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.001 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 4531 Nucleic Acid Atoms Solvent Atoms 436 Heterogen Atoms 53
Software Software Software Name Purpose MAR345 data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling