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Fine-tuning the stimulation of MLL1 methyltransferase activity by a histone H3 based peptide mimetic
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2H14 PDB entry 2H14
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 293 50 mM NaAcetate, 100 mM NH4 SO4 , and 20% PEG4000, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.74 29.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.947 α = 98.79 b = 48.614 β = 90.95 c = 63.308 γ = 117.48
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 2008-06-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 1.023 APS 23-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.7 40 97 0.065 20.6 3.1 51999 50439 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.76 93.8 0.232 2.4 2.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 PDB entry 2H14 1.7 35.64 2 50439 47864 2575 96.6 0.193 0.15747 0.15492 0.1616 0.2051 0.2143 RANDOM 20.065
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] -0.01 -0.01 -0.01 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.909 r_dihedral_angle_4_deg 22.248 r_dihedral_angle_3_deg 15.311 r_dihedral_angle_1_deg 7.524 r_scangle_it 5.341 r_scbond_it 3.427 r_mcangle_it 2.173 r_angle_refined_deg 1.945 r_mcbond_it 1.294 r_chiral_restr 0.162
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.909 r_dihedral_angle_4_deg 22.248 r_dihedral_angle_3_deg 15.311 r_dihedral_angle_1_deg 7.524 r_scangle_it 5.341 r_scbond_it 3.427 r_mcangle_it 2.173 r_angle_refined_deg 1.945 r_mcbond_it 1.294 r_chiral_restr 0.162 r_bond_refined_d 0.023 r_gen_planes_refined 0.012
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4665 Nucleic Acid Atoms Solvent Atoms 351 Heterogen Atoms
Software Software Software Name Purpose Blu-Ice data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling