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O-Methyltransferase Plu4890 in complex with SAH and AQ-270a
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 6.5 293 0.1 M MES pH 6.5, 25% PEG10000
Crystal Properties Matthews coefficient Solvent content 2.82 56.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.14 α = 90 b = 78.37 β = 96.31 c = 167.73 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 EIGER X 16M 2022-02-26 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 1.9 47 97.4 0.08 8.1 3.1 124883
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 1.9 2 99 0.63 2.2
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 1.9 30 118613 6243 97.38 0.1811 0.179 0.1863 0.2204 0.227 RANDOM 40.395
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] 2.17 2.37 -3.26 0.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.51 r_dihedral_angle_4_deg 17.895 r_dihedral_angle_3_deg 13.378 r_dihedral_angle_1_deg 6.063 r_rigid_bond_restr 1.172 r_angle_refined_deg 1.148 r_angle_other_deg 1.145 r_chiral_restr 0.045 r_gen_planes_refined 0.003 r_bond_refined_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.51 r_dihedral_angle_4_deg 17.895 r_dihedral_angle_3_deg 13.378 r_dihedral_angle_1_deg 6.063 r_rigid_bond_restr 1.172 r_angle_refined_deg 1.148 r_angle_other_deg 1.145 r_chiral_restr 0.045 r_gen_planes_refined 0.003 r_bond_refined_d 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 10296 Nucleic Acid Atoms Solvent Atoms 480 Heterogen Atoms 211
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction XSCALE data scaling PHASER phasing