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Crystal structure of 5-hydroxymethylfurfural oxidase (HMFO) in the reduced state
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 22% W/V PEG3350, 200 MM MAGNESIUM FORMATE
Crystal Properties Matthews coefficient Solvent content 1.96 37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.55 α = 90 b = 121.83 β = 91.4 c = 72.49 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2014-03-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA SLS X06SA
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 1.6 22 99.2 0.12 4.8 2.8 114344
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 1.6 1.63 98.3 0.74 1.2 2.5
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 OTHER THROUGHOUT NONE 1.6 72.47 108718 5568 99.16 0.1707 0.16844 0.1803 0.21618 0.2258 RANDOM 16.537
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] 0.73 -0.18 0.85 -1.57
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.5 r_dihedral_angle_4_deg 16.824 r_dihedral_angle_3_deg 13.28 r_dihedral_angle_1_deg 6.94 r_scbond_it 2.23 r_mcangle_it 2.033 r_angle_refined_deg 1.899 r_mcbond_other 1.382 r_mcbond_it 1.381 r_angle_other_deg 0.955
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.5 r_dihedral_angle_4_deg 16.824 r_dihedral_angle_3_deg 13.28 r_dihedral_angle_1_deg 6.94 r_scbond_it 2.23 r_mcangle_it 2.033 r_angle_refined_deg 1.899 r_mcbond_other 1.382 r_mcbond_it 1.381 r_angle_other_deg 0.955 r_chiral_restr 0.128 r_bond_refined_d 0.018 r_gen_planes_refined 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_mcangle_other 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 7976 Nucleic Acid Atoms Solvent Atoms 744 Heterogen Atoms 112
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction Aimless data scaling REFMAC phasing