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Substrate Promiscuous Cytochrome P450 RufO
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.2M Magnesium Chloride Hexahydrate, 0.1M Tris HCl (pH 8.25), 25% (W/V) PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.25 45.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.75 α = 90 b = 76.75 β = 90 c = 135.7 γ = 90
Symmetry Space Group P 41 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 IMAGE PLATE MAR scanner 345 mm plate 2021-11-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 76.75 99.3 0.94 5.5 6.7 11730
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 2.7 0.945
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.7 76.75 11730 603 99.3 0.232 0.2287 0.2824 0.2406 28.14
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] -1.089 -1.089 2.178
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_other_3_deg 20.146 r_dihedral_angle_3_deg 15.054 r_dihedral_angle_6_deg 14.154 r_dihedral_angle_2_deg 7.654 r_dihedral_angle_1_deg 6.975 r_lrange_it 3.864 r_lrange_other 3.864 r_mcangle_it 2.058 r_mcangle_other 2.057 r_scangle_it 1.744
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_other_3_deg 20.146 r_dihedral_angle_3_deg 15.054 r_dihedral_angle_6_deg 14.154 r_dihedral_angle_2_deg 7.654 r_dihedral_angle_1_deg 6.975 r_lrange_it 3.864 r_lrange_other 3.864 r_mcangle_it 2.058 r_mcangle_other 2.057 r_scangle_it 1.744 r_scangle_other 1.743 r_angle_refined_deg 1.458 r_mcbond_it 1.162 r_mcbond_other 1.161 r_scbond_it 0.969 r_scbond_other 0.968 r_angle_other_deg 0.508 r_nbd_other 0.221 r_nbd_refined 0.219 r_symmetry_nbd_other 0.204 r_nbtor_refined 0.176 r_symmetry_nbd_refined 0.172 r_xyhbond_nbd_refined 0.153 r_symmetry_xyhbond_nbd_refined 0.136 r_symmetry_nbtor_other 0.08 r_chiral_restr 0.064 r_chiral_restr_other 0.051 r_bond_refined_d 0.006 r_gen_planes_refined 0.005 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2814 Nucleic Acid Atoms Solvent Atoms 29 Heterogen Atoms 43
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing