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C-TERMINAL BROMODOMAIN OF HUMAN BRD2 WITH 7,8-dimethoxy-1,3-dimethyl-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 273 30% PEG 300, 0.1M MES buffer pH6.5
Crystal Properties Matthews coefficient Solvent content 2.24 45.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.802 α = 90 b = 52.416 β = 90 c = 31.983 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 2015-02-11 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 52.42 92.6 0.016 0.998 47.9 3.5 15172
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 1.7 69.4 0.066 0.957 15 2.6
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 1.603 35.927 15121 728 91.781 0.147 0.1459 0.157 0.1707 0.1834 16.573
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 -0.264 0.254
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.899 r_dihedral_angle_4_deg 22.154 r_dihedral_angle_3_deg 10.663 r_lrange_it 5.78 r_lrange_other 5.778 r_dihedral_angle_1_deg 4.635 r_scangle_it 2.153 r_scangle_other 2.152 r_mcangle_other 1.56 r_mcangle_it 1.554
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.899 r_dihedral_angle_4_deg 22.154 r_dihedral_angle_3_deg 10.663 r_lrange_it 5.78 r_lrange_other 5.778 r_dihedral_angle_1_deg 4.635 r_scangle_it 2.153 r_scangle_other 2.152 r_mcangle_other 1.56 r_mcangle_it 1.554 r_angle_other_deg 1.324 r_angle_refined_deg 1.288 r_scbond_it 1.288 r_scbond_other 1.287 r_mcbond_it 0.901 r_mcbond_other 0.849 r_nbd_refined 0.205 r_nbtor_refined 0.171 r_symmetry_nbd_other 0.166 r_nbd_other 0.139 r_symmetry_nbd_refined 0.125 r_symmetry_xyhbond_nbd_refined 0.103 r_xyhbond_nbd_refined 0.098 r_symmetry_nbtor_other 0.08 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 931 Nucleic Acid Atoms Solvent Atoms 217 Heterogen Atoms 54
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling