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Unspecific peroxygenase from Marasmius wettsteinii (MweUPO-1) in complex with isophorone
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5FUK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 12% PEG 4000, 200mM ammonium sulfate.
Soaking: 30 mM isophorone, 16 hours, cryoprotected with 15% glycerol
Crystal Properties Matthews coefficient Solvent content 2.45 49.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.233 α = 90 b = 76.233 β = 90 c = 185.484 γ = 90
Symmetry Space Group P 43 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 PIXEL DECTRIS PILATUS 6M KB MIRRORS 2021-05-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.9793 ALBA XALOC
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.05 48.07 95.2 0.051 0.055 0.019 0.999 16.4 6.7 33452
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.05 2.11 97.6 0.558 0.602 0.214 0.922 2.3 6.6
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 (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 2.05 48.07 31696 1678 94.67 0.20396 0.20156 0.2078 0.24785 0.2538 RANDOM 53.954
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] 2.48 2.48 -4.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.443 r_dihedral_angle_2_deg 8.994 r_long_range_B_other 7.914 r_long_range_B_refined 7.904 r_dihedral_angle_1_deg 6.357 r_scangle_other 6.25 r_mcangle_it 5.568 r_mcangle_other 5.567 r_scbond_it 4.374 r_scbond_other 4.346
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.443 r_dihedral_angle_2_deg 8.994 r_long_range_B_other 7.914 r_long_range_B_refined 7.904 r_dihedral_angle_1_deg 6.357 r_scangle_other 6.25 r_mcangle_it 5.568 r_mcangle_other 5.567 r_scbond_it 4.374 r_scbond_other 4.346 r_mcbond_it 4.208 r_mcbond_other 4.208 r_angle_refined_deg 1.294 r_angle_other_deg 0.443 r_chiral_restr 0.064 r_gen_planes_other 0.008 r_gen_planes_refined 0.007 r_bond_refined_d 0.006 r_bond_other_d 0.001 r_dihedral_angle_4_deg 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3853 Nucleic Acid Atoms Solvent Atoms 167 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing