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Crystal structure of human BRD4(1) in complex with 4-[(2E)-3-(4-methoxyphenyl)-2-phenylprop-2-enoyl]-3,4-dihydroquinoxalin-2(1H)-one (compound 19a)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 298 10% PEG3350, 0.1 M HEPES, pH 7.5, 0.2 M L-proline, soaked in 20 mM ligand for 3 hours at room temperature
Crystal Properties Matthews coefficient Solvent content 2.15 42.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.936 α = 90 b = 44.072 β = 90 c = 78.161 γ = 90
Symmetry Space Group P 21 21 21
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 ADSC QUANTUM 315r 2012-07-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 1.0750 NSLS X29A
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 1.6 50 98.7 0.088 11.7 6 17723
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 1.6 1.66 100 0.664 3.5 6.1 1765
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 (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 1.6 29.24 17608 895 97.84 0.1617 0.1597 0.1717 0.1994 0.2155 RANDOM 29.6066
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] -0.04 0.05 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.146 r_dihedral_angle_4_deg 17.349 r_dihedral_angle_3_deg 13.517 r_dihedral_angle_1_deg 5.942 r_mcangle_it 3.05 r_mcbond_it 2.204 r_mcbond_other 2.155 r_angle_refined_deg 2.063 r_angle_other_deg 1.005 r_chiral_restr 0.135
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.146 r_dihedral_angle_4_deg 17.349 r_dihedral_angle_3_deg 13.517 r_dihedral_angle_1_deg 5.942 r_mcangle_it 3.05 r_mcbond_it 2.204 r_mcbond_other 2.155 r_angle_refined_deg 2.063 r_angle_other_deg 1.005 r_chiral_restr 0.135 r_bond_refined_d 0.021 r_gen_planes_refined 0.013 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1068 Nucleic Acid Atoms Solvent Atoms 221 Heterogen Atoms 29
Software Software Software Name Purpose HKL-2000 data reduction PDB_EXTRACT data extraction REFMAC refinement DENZO data reduction SCALEPACK data scaling