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C-TERMINAL BROMODOMAIN OF HUMAN BRD2 WITH 7,8-dimethoxy-3-methyl-1,3-dihydro-2H-benzo[d]azepin-2-one
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other In house
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 30% PEG 300, 0.1M MES buffer pH6.5
Crystal Properties Matthews coefficient Solvent content 2.25 45.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.906 α = 90 b = 52.421 β = 90 c = 32.086 γ = 90
Symmetry Space Group P 21 21 2
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 RIGAKU SATURN A200 2014-11-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E SUPERBRIGHT 1.54178
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 1.619 71.39 96.3 0.013 52.1 2.5 15360
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 1.619 1.71 85 0.031 22.2 1.7
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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE In house 1.619 21.808 15248 758 94.938 0.15 0.1483 0.1512 0.1827 0.1861 13.384
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] 0.094 -0.051 -0.043
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.061 r_dihedral_angle_4_deg 18.736 r_dihedral_angle_3_deg 11.322 r_lrange_it 5.005 r_lrange_other 5.003 r_dihedral_angle_1_deg 4.939 r_scangle_it 1.663 r_scangle_other 1.662 r_angle_other_deg 1.35 r_angle_refined_deg 1.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.061 r_dihedral_angle_4_deg 18.736 r_dihedral_angle_3_deg 11.322 r_lrange_it 5.005 r_lrange_other 5.003 r_dihedral_angle_1_deg 4.939 r_scangle_it 1.663 r_scangle_other 1.662 r_angle_other_deg 1.35 r_angle_refined_deg 1.23 r_mcangle_other 1.213 r_mcangle_it 1.211 r_scbond_it 0.985 r_scbond_other 0.985 r_mcbond_it 0.694 r_mcbond_other 0.668 r_nbd_refined 0.206 r_nbtor_refined 0.173 r_symmetry_nbd_other 0.166 r_symmetry_nbd_refined 0.147 r_nbd_other 0.13 r_xyhbond_nbd_refined 0.107 r_symmetry_xyhbond_nbd_refined 0.095 r_symmetry_nbtor_other 0.078 r_chiral_restr 0.068 r_bond_refined_d 0.005 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 915 Nucleic Acid Atoms Solvent Atoms 260 Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling