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C-TERMINAL BROMODOMAIN OF HUMAN BRD2 WITH 1-benzyl-N5-cyclopropyl-N3-methyl-1H-pyrazole-3,5-dicarboxamide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other in house structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 293 30% PEG 300, 0.1M MES buffer pH6.5
Crystal Properties Matthews coefficient Solvent content 2.25 45.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.851 α = 90 b = 52.411 β = 90 c = 32.066 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 2015-08-28 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 71.85 95 0.013 0.997 51.7 2.7 15652
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 77 0.039 0.959 20 1.8
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 FOURIER SYNTHESIS FREE R-VALUE in house structure 1.602 14.114 15546 775 93.962 0.159 0.1574 0.1693 0.1921 0.2007 14.576
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] -0.195 -0.207 0.401
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.639 r_dihedral_angle_4_deg 19.839 r_dihedral_angle_3_deg 12.03 r_lrange_it 5.53 r_lrange_other 5.529 r_dihedral_angle_1_deg 4.831 r_scangle_it 2.277 r_scangle_other 2.276 r_mcangle_it 1.674 r_mcangle_other 1.672
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.639 r_dihedral_angle_4_deg 19.839 r_dihedral_angle_3_deg 12.03 r_lrange_it 5.53 r_lrange_other 5.529 r_dihedral_angle_1_deg 4.831 r_scangle_it 2.277 r_scangle_other 2.276 r_mcangle_it 1.674 r_mcangle_other 1.672 r_scbond_it 1.344 r_scbond_other 1.343 r_angle_other_deg 1.243 r_angle_refined_deg 1.152 r_mcbond_it 0.955 r_mcbond_other 0.954 r_nbd_refined 0.193 r_nbd_other 0.171 r_nbtor_refined 0.165 r_symmetry_nbd_other 0.163 r_symmetry_nbd_refined 0.14 r_symmetry_xyhbond_nbd_refined 0.107 r_xyhbond_nbd_refined 0.105 r_symmetry_nbtor_other 0.077 r_chiral_restr 0.063 r_gen_planes_refined 0.004 r_bond_refined_d 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 919 Nucleic Acid Atoms Solvent Atoms 175 Heterogen Atoms 45
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling