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Crystal structure of PRMT5:MEP50 in complex with MTA and oxamide compound 23
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6 291 10% PEG 4000, 0.2M magnesium chloride, 0.1M sodium citrate (pH 6.0)
Crystal Properties Matthews coefficient Solvent content 2.89 57.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.37 α = 90 b = 138.79 β = 90 c = 179.71 γ = 90
Symmetry Space Group I 2 2 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 PILATUS3 S 6M 2019-07-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97779 CLSI 08ID-1
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 2.46 46.8 99.9 0.078 0.085 0.033 0.999 14.5 6.7 47213
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 2.46 2.55 100 0.934 1.013 0.39 0.875 6.7
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT 2.46 46.8 44850 2330 99.84 0.2034 0.20104 0.25027 0.2307 RANDOM 68.044
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] 3.55 -0.66 -2.89
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.862 r_dihedral_angle_4_deg 20.224 r_dihedral_angle_3_deg 15.934 r_dihedral_angle_1_deg 7.668 r_long_range_B_refined 4.387 r_long_range_B_other 4.385 r_mcangle_it 1.902 r_mcangle_other 1.901 r_scangle_other 1.687 r_angle_refined_deg 1.483
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.862 r_dihedral_angle_4_deg 20.224 r_dihedral_angle_3_deg 15.934 r_dihedral_angle_1_deg 7.668 r_long_range_B_refined 4.387 r_long_range_B_other 4.385 r_mcangle_it 1.902 r_mcangle_other 1.901 r_scangle_other 1.687 r_angle_refined_deg 1.483 r_angle_other_deg 1.144 r_mcbond_it 1.108 r_mcbond_other 1.108 r_scbond_it 1.032 r_scbond_other 1.032 r_chiral_restr 0.059 r_bond_refined_d 0.006 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 7352 Nucleic Acid Atoms Solvent Atoms 93 Heterogen Atoms 126
Software Software Software Name Purpose REFMAC refinement Aimless data scaling XDS data reduction