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Crystal structure of Dot1l in complex with a brominated SAH analog
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3QOW 3qow, nearly isomorphous structure, coordinates used without transformation
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 4.6 291 1.5 M ammonium sulfate, 0.1 M sodium acetate, 0.0015 M ligand, pH 4.6, vapor diffusion, temperature 291K, VAPOR DIFFUSION
Crystal Properties Matthews coefficient Solvent content 3.58 65.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 152.917 α = 90 b = 152.917 β = 90 c = 50.964 γ = 120
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 300 mm CCD 2011-06-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 1.0332 APS 23-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.28 50 100 0.074 11.6 6.1 31477
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.28 2.36 100 0.822 5.8 3097
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 FOURIER SYNTHESIS THROUGHOUT 3qow, nearly isomorphous structure, coordinates used without transformation 2.28 42.633 31334 1512 99.818 0.21 0.2095 0.2143 0.2281 0.2287 taken from pdb entry 3qow 43.339
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] -1.257 -0.628 -1.257 1.885
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.081 r_dihedral_angle_4_deg 14.274 r_dihedral_angle_3_deg 13.763 r_dihedral_angle_1_deg 5.439 r_scangle_it 3.023 r_scbond_it 1.842 r_angle_refined_deg 1.343 r_mcangle_it 1.263 r_angle_other_deg 0.867 r_mcbond_it 0.671
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.081 r_dihedral_angle_4_deg 14.274 r_dihedral_angle_3_deg 13.763 r_dihedral_angle_1_deg 5.439 r_scangle_it 3.023 r_scbond_it 1.842 r_angle_refined_deg 1.343 r_mcangle_it 1.263 r_angle_other_deg 0.867 r_mcbond_it 0.671 r_mcbond_other 0.134 r_chiral_restr 0.08 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2545 Nucleic Acid Atoms Solvent Atoms 34 Heterogen Atoms 52
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling