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ASH1L SET domain H2193F mutant in complex with S-adenosyl methionine (SAM)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4YNM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 PEG 3350, 20 mM Tris
Crystal Properties Matthews coefficient Solvent content 2.31 46.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.838 α = 90 b = 58.838 β = 90 c = 232.152 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 CCD MARMOSAIC 225 mm CCD 2014-06-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.2 50 86.1 0.073 0.08 0.032 9.6 5.2 21349
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 2.2 2.24 79.5 0.385 0.416 0.15 0.923 5.7 945
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 4YNM 2.2 42.56 20191 1094 85.9 0.2188 0.2165 0.2128 0.2625 0.2608 RANDOM 32.169
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] -0.1 -0.05 -0.1 0.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.172 r_dihedral_angle_4_deg 22.533 r_dihedral_angle_3_deg 16.3 r_dihedral_angle_1_deg 7.643 r_scangle_it 4.738 r_scbond_it 3.101 r_mcangle_it 2.305 r_angle_refined_deg 1.94 r_mcbond_it 1.254 r_chiral_restr 0.132
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.172 r_dihedral_angle_4_deg 22.533 r_dihedral_angle_3_deg 16.3 r_dihedral_angle_1_deg 7.643 r_scangle_it 4.738 r_scbond_it 3.101 r_mcangle_it 2.305 r_angle_refined_deg 1.94 r_mcbond_it 1.254 r_chiral_restr 0.132 r_bond_refined_d 0.022 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3386 Nucleic Acid Atoms Solvent Atoms 107 Heterogen Atoms 60
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling PDB_EXTRACT data extraction DENZO data reduction MOLREP phasing