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Crystal structure of monooxygenase RutA complexed with dioxygen under 0.5 MPa / 5 bars of oxygen pressure.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5WAN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 295 100 mM Bis-Tris pH 6.5, 1900 mM Ammonium Sulphate, 2-5% MPD (v/v), 1 mM FMN
Crystal Properties Matthews coefficient Solvent content 2.67 53.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.673 α = 90 b = 87.673 β = 90 c = 96.571 γ = 120
Symmetry Space Group P 31 2 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 EIGER X 16M 2018-06-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.0 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 1.8 48.29 100 0.08 17.2 9.9 40277
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.9 0.84
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5WAN 1.8 43.875 40237 2088 99.963 0.162 0.1598 0.1721 0.1963 0.2024 27.675
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] 0.105 0.053 0.105 -0.342
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.257 r_dihedral_angle_4_deg 18.737 r_dihedral_angle_3_deg 12.958 r_lrange_it 7.466 r_lrange_other 7.424 r_dihedral_angle_1_deg 6.904 r_scangle_it 6.045 r_scangle_other 6.044 r_scbond_it 4.267 r_scbond_other 4.265
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.257 r_dihedral_angle_4_deg 18.737 r_dihedral_angle_3_deg 12.958 r_lrange_it 7.466 r_lrange_other 7.424 r_dihedral_angle_1_deg 6.904 r_scangle_it 6.045 r_scangle_other 6.044 r_scbond_it 4.267 r_scbond_other 4.265 r_mcangle_it 3.215 r_mcangle_other 3.214 r_mcbond_it 2.479 r_mcbond_other 2.478 r_angle_refined_deg 1.81 r_angle_other_deg 1.538 r_symmetry_xyhbond_nbd_refined 0.252 r_nbd_refined 0.214 r_symmetry_nbd_other 0.184 r_nbd_other 0.184 r_nbtor_refined 0.177 r_symmetry_nbd_refined 0.169 r_xyhbond_nbd_refined 0.14 r_chiral_restr 0.095 r_symmetry_nbtor_other 0.085 r_bond_refined_d 0.013 r_gen_planes_refined 0.012 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2618 Nucleic Acid Atoms Solvent Atoms 201 Heterogen Atoms 54
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling PHASER phasing