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HUMAN PRMT5:MEP50 COMPLEX IN COMPLEX WITH LIGAND 18
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7BO7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 277 0.27 M (NH4)2SO4; 0.05 M MES pH 6.75; 23.0% w/v PEG 3350
PROTEIN SOLUTION : 2 mM DTT, 10 % Glycerol, 10 mM HEPES-NaOH pH 7.5, 150 mM NaCl
Crystal Properties Matthews coefficient Solvent content 3.06 59.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 102.807 α = 90 b = 139.139 β = 90 c = 179.354 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 EIGER2 X 16M 2024-09-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.8856 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) 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 2.197 109.94 52.6 0.216 0.062 0.983 7.7 12.9 34528
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.197 2.541 7.5 1.865 0.547 0.587 1.6 12.4
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 MOLECULAR REPLACEMENT THROUGHOUT 2.2 109.94 32837 1691 52.55 0.22612 0.22403 0.26621 0.2678 RANDOM 42.156
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] 0.81 -0.38 -0.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.464 r_dihedral_angle_4_deg 14.228 r_dihedral_angle_3_deg 13.07 r_dihedral_angle_1_deg 6.936 r_long_range_B_refined 3.84 r_long_range_B_other 3.832 r_mcangle_it 2.373 r_mcangle_other 2.373 r_scangle_other 1.613 r_mcbond_other 1.315
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.464 r_dihedral_angle_4_deg 14.228 r_dihedral_angle_3_deg 13.07 r_dihedral_angle_1_deg 6.936 r_long_range_B_refined 3.84 r_long_range_B_other 3.832 r_mcangle_it 2.373 r_mcangle_other 2.373 r_scangle_other 1.613 r_mcbond_other 1.315 r_angle_refined_deg 1.302 r_angle_other_deg 1.053 r_scbond_it 0.857 r_scbond_other 0.857 r_chiral_restr 0.044 r_bond_refined_d 0.003 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7335 Nucleic Acid Atoms Solvent Atoms 149 Heterogen Atoms 66
Software Software Software Name Purpose autoPROC data reduction XDS data reduction autoPROC data scaling Aimless data scaling REFMAC refinement XDS data scaling