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O-Methyltransferase Plu4890 in complex with SAH and AQ-256
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 0.2 M NaI, 0.1 M bis-tris propane pH 6.5, 20% PEG3350
Crystal Properties Matthews coefficient Solvent content 2.77 55.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.06 α = 90 b = 77.05 β = 95.5 c = 167.22 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 2018-04-14 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 2.3 48 96.7 0.077 9.1 3.1 68830
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 2.3 2.4 0.556 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 2.3 30 65359 3440 96.64 0.2155 0.2136 0.2183 0.2516 0.2548 RANDOM 45.363
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 1.08 1 -3.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.625 r_dihedral_angle_4_deg 15.671 r_dihedral_angle_3_deg 13.831 r_dihedral_angle_1_deg 5.778 r_angle_refined_deg 1.126 r_angle_other_deg 1.084 r_rigid_bond_restr 0.233 r_chiral_restr 0.038 r_bond_refined_d 0.002 r_gen_planes_refined 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.625 r_dihedral_angle_4_deg 15.671 r_dihedral_angle_3_deg 13.831 r_dihedral_angle_1_deg 5.778 r_angle_refined_deg 1.126 r_angle_other_deg 1.084 r_rigid_bond_restr 0.233 r_chiral_restr 0.038 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 10296 Nucleic Acid Atoms Solvent Atoms 492 Heterogen Atoms 206
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction XSCALE data scaling PHASER phasing