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Crystal structure of the human METTL3-METTL14 in complex with small molecule inhibitor Compound 31
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7O2I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 0.2 M calcium chloride, 0.1 M Tris:HCl pH 8.0, 18% (w/v) PEG 4000, 20C, sitting
drop, protein:precipitant solution ratio = 1:1
Crystal Properties Matthews coefficient Solvent content 2.52 51.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.082 α = 90 b = 64.082 β = 90 c = 225.609 γ = 120
Symmetry Space Group P 32 2 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 2022-04-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.97856 SOLEIL PROXIMA 1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 45.12 100 0.15 0.999 15.1 20.1 35507
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.05 0.96
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2 44.69 35507 1896 99.98 0.18973 0.18736 0.1977 0.23276 0.2345 RANDOM 42.127
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] -0.49 -0.25 -0.49 1.61
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.709 r_long_range_B_other 9.708 r_long_range_B_refined 9.693 r_dihedral_angle_1_deg 7.428 r_scangle_other 7.082 r_mcangle_it 5.688 r_mcangle_other 5.687 r_dihedral_angle_2_deg 5.304 r_scbond_it 4.551 r_scbond_other 4.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.709 r_long_range_B_other 9.708 r_long_range_B_refined 9.693 r_dihedral_angle_1_deg 7.428 r_scangle_other 7.082 r_mcangle_it 5.688 r_mcangle_other 5.687 r_dihedral_angle_2_deg 5.304 r_scbond_it 4.551 r_scbond_other 4.55 r_mcbond_it 3.874 r_mcbond_other 3.869 r_angle_refined_deg 1.43 r_angle_other_deg 0.462 r_chiral_restr 0.062 r_bond_refined_d 0.007 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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 3763 Nucleic Acid Atoms Solvent Atoms 264 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing