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Crystal structure of the RRM domain of human SETD1A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3LPY composite of pdb entries 3LPY and 2J8A experimental model PDB 2J8A composite of pdb entries 3LPY and 2J8A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7 291 1.5 M ammonium sulfate, 0.1 M bistris propane, pH 7.0, vapor diffusion, temperature 291K
Crystal Properties Matthews coefficient Solvent content 1.61 23.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.65 α = 90 b = 31.51 β = 114.12 c = 39.32 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 100 CCD MARMOSAIC 300 mm CCD 2011-04-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 0.97941 APS 23-ID-B
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 1.3 31.29 98.9 0.066 12.39 19651 -3 16.625
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 1.3 1.33 96.3 0.705 1.9
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 composite of pdb entries 3LPY and 2J8A 1.3 31.29 19618 995 98.97 0.17 0.168 0.1703 0.198 0.2028 RANDOM 8.62
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] 0.13 0.2 -0.07 0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.815 r_dihedral_angle_4_deg 11.439 r_dihedral_angle_3_deg 10.519 r_dihedral_angle_1_deg 5.657 r_scangle_it 4.342 r_scbond_it 2.752 r_mcangle_it 1.966 r_angle_refined_deg 1.425 r_mcbond_it 1.158 r_angle_other_deg 0.891
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.815 r_dihedral_angle_4_deg 11.439 r_dihedral_angle_3_deg 10.519 r_dihedral_angle_1_deg 5.657 r_scangle_it 4.342 r_scbond_it 2.752 r_mcangle_it 1.966 r_angle_refined_deg 1.425 r_mcbond_it 1.158 r_angle_other_deg 0.891 r_mcbond_other 0.379 r_chiral_restr 0.095 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 850 Nucleic Acid Atoms Solvent Atoms 96 Heterogen Atoms 17
Software Software Software Name Purpose XSCALE data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction