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O-Methyltransferase Plu4890 in complex with SAH and AQ-284b
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8BGT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 298 0.5 M Lithium chloride, 0.1 M Tris pH 8.5, 28% PEG6000
Crystal Properties Matthews coefficient Solvent content 2.33 47.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91 α = 89.96 b = 91.13 β = 106.18 c = 150.41 γ = 119.97
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 2022-10-15 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 2.4 48 92.4 0.115 6.2 2.7 143304
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 2.4 2.5 94.2 0.659 1.8
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 MOLECULAR REPLACEMENT THROUGHOUT 8BGT 2.4 30 136095 7163 92.43 0.2688 0.2674 0.2714 0.2962 0.2984 RANDOM 54.099
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] -2.21 -1.05 2.09 -2.98 1.47 4.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.427 r_dihedral_angle_4_deg 16.147 r_dihedral_angle_3_deg 13.718 r_dihedral_angle_1_deg 5.86 r_angle_refined_deg 1.152 r_angle_other_deg 1.045 r_chiral_restr 0.034 r_bond_refined_d 0.002 r_gen_planes_refined 0.002 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.427 r_dihedral_angle_4_deg 16.147 r_dihedral_angle_3_deg 13.718 r_dihedral_angle_1_deg 5.86 r_angle_refined_deg 1.152 r_angle_other_deg 1.045 r_chiral_restr 0.034 r_bond_refined_d 0.002 r_gen_planes_refined 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 30888 Nucleic Acid Atoms Solvent Atoms 183 Heterogen Atoms 519
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction XSCALE data scaling PHASER phasing