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First bromodomain of BRD4 bound to inhibitor XD33
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 PEG3350, Hepes, magnesium chloride
Crystal Properties Matthews coefficient Solvent content 1.88 34.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.29 α = 90 b = 49.52 β = 90 c = 58.15 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 IMAGE PLATE MAR scanner 345 mm plate 2012-12-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
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 1.65 32.6 99.9 0.077 10.3 3.4 14195
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 1.65 1.74 100 0.505 2.2 2017
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 THROUGHOUT 1.7 32.6 11689 1296 99.81 0.17989 0.17712 0.1769 0.20554 0.2055 RANDOM 17.711
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] 0.45 -0.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.157 r_dihedral_angle_3_deg 13.215 r_dihedral_angle_4_deg 11.089 r_dihedral_angle_1_deg 4.377 r_long_range_B_refined 3.396 r_angle_refined_deg 1.355 r_scbond_it 0.748 r_mcangle_it 0.659 r_mcbond_it 0.393 r_chiral_restr 0.083
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.157 r_dihedral_angle_3_deg 13.215 r_dihedral_angle_4_deg 11.089 r_dihedral_angle_1_deg 4.377 r_long_range_B_refined 3.396 r_angle_refined_deg 1.355 r_scbond_it 0.748 r_mcangle_it 0.659 r_mcbond_it 0.393 r_chiral_restr 0.083 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1055 Nucleic Acid Atoms Solvent Atoms 148 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement SCALA data scaling PHASER phasing iMOSFLM data reduction