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Crystal Structure of MYST histone acetyltransferase KAT6A in complex with Compound 20
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6CT2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298.15 0.2 M Sod. Malonate, pH 6.0, 20% PEG3350
Crystal Properties Matthews coefficient Solvent content 2.4 49.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.685 α = 90 b = 46.405 β = 90.021 c = 120.922 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 298 CCD ADSC QUANTUM 210 2022-08-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 1.0 Australian Synchrotron MX2
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 2.36 46.4 98.2 0.082 0.999 6 5.8 26843
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.36 2.45 1.2 0.696
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 (All) 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 6CT2 2.4 43.324 25600 1320 98.75 0.297 0.2927 0.2927 0.3725 0.3723 RANDOM 32.507
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] -0.005 -0.002 -0.025 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.556 r_dihedral_angle_6_deg 14.821 r_lrange_it 8.692 r_lrange_other 8.692 r_dihedral_angle_2_deg 8.126 r_dihedral_angle_1_deg 7.858 r_scangle_it 5.776 r_scangle_other 5.776 r_mcangle_it 4.581 r_scbond_it 3.645
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.556 r_dihedral_angle_6_deg 14.821 r_lrange_it 8.692 r_lrange_other 8.692 r_dihedral_angle_2_deg 8.126 r_dihedral_angle_1_deg 7.858 r_scangle_it 5.776 r_scangle_other 5.776 r_mcangle_it 4.581 r_scbond_it 3.645 r_scbond_other 3.644 r_mcbond_it 2.906 r_angle_refined_deg 1.814 r_angle_other_deg 1.343 r_nbtor_refined 0.318 r_symmetry_xyhbond_nbd_refined 0.295 r_xyhbond_nbd_refined 0.289 r_nbd_refined 0.253 r_symmetry_nbd_other 0.227 r_symmetry_nbd_refined 0.168 r_chiral_restr 0.124 r_symmetry_nbtor_other 0.076 r_gen_planes_refined 0.008 r_bond_refined_d 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4265 Nucleic Acid Atoms Solvent Atoms 121 Heterogen Atoms 64
Software Software Software Name Purpose REFMAC refinement CrystFEL data reduction CrystalClear data scaling MOLREP phasing