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C-TERMINAL BROMODOMAIN OF HUMAN BRD2 WITH 5-(1-benzyl-4-chloro-1H-imidazol-2-yl)-1,3-dimethylpyridin-2(1H)-one
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other in house
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 30% PEG 300 0.1M MES buffer pH6.5
Crystal Properties Matthews coefficient Solvent content 2.23 44.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.755 α = 90 b = 52.427 β = 90 c = 31.92 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 2015-06-03 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) CC (Half) 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 1.6 29.2 94.1 0.013 0.998 52.8 2.8 15367
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.69 75.5 0.034 0.984 21.7 1.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.602 29.182 15296 730 92.979 0.151 0.1501 0.1628 0.1751 0.181 14.39
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] -0.118 -0.037 0.155
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.064 r_dihedral_angle_3_deg 13.125 r_lrange_it 5.475 r_lrange_other 5.473 r_dihedral_angle_1_deg 4.756 r_dihedral_angle_2_deg 4.411 r_scangle_it 2.372 r_scangle_other 2.37 r_mcangle_other 1.885 r_mcangle_it 1.878
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.064 r_dihedral_angle_3_deg 13.125 r_lrange_it 5.475 r_lrange_other 5.473 r_dihedral_angle_1_deg 4.756 r_dihedral_angle_2_deg 4.411 r_scangle_it 2.372 r_scangle_other 2.37 r_mcangle_other 1.885 r_mcangle_it 1.878 r_scbond_it 1.391 r_scbond_other 1.39 r_mcbond_it 1.064 r_mcbond_other 1.034 r_angle_refined_deg 0.991 r_angle_other_deg 0.371 r_nbd_refined 0.211 r_nbtor_refined 0.186 r_symmetry_nbd_other 0.179 r_nbd_other 0.122 r_xyhbond_nbd_refined 0.097 r_symmetry_nbd_refined 0.076 r_symmetry_nbtor_other 0.073 r_symmetry_xyhbond_nbd_refined 0.071 r_chiral_restr 0.055 r_gen_planes_refined 0.004 r_bond_refined_d 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 926 Nucleic Acid Atoms Solvent Atoms 197 Heterogen Atoms 54
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling