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Crystal structure of the second bromodomain of human BRD2 in complex with a tetrahydroquinoline inhibitor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 277 20% PEG6000, 0.1M citrate pH5
Crystal Properties Matthews coefficient Solvent content 2.75 55.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.704 α = 90 b = 69.749 β = 90 c = 141.215 γ = 90
Symmetry Space Group C 2 2 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 PIXEL DECTRIS PILATUS 6M 2014-11-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.9794 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.08 29.21 99.4 0.159 0.067 13.1 12.6 17910 17910
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 2.08 2.14 92.8 0.8 3.1 11.6
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 2.08 29.21 16963 914 99.39 0.18394 0.18183 0.1907 0.22312 0.232 RANDOM 30.351
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] 0.64 -0.32 -0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.458 r_dihedral_angle_4_deg 19.816 r_dihedral_angle_3_deg 15.171 r_long_range_B_other 5.727 r_long_range_B_refined 5.725 r_dihedral_angle_1_deg 5.222 r_scangle_other 4.21 r_mcangle_other 2.623 r_mcangle_it 2.62 r_scbond_it 2.574
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.458 r_dihedral_angle_4_deg 19.816 r_dihedral_angle_3_deg 15.171 r_long_range_B_other 5.727 r_long_range_B_refined 5.725 r_dihedral_angle_1_deg 5.222 r_scangle_other 4.21 r_mcangle_other 2.623 r_mcangle_it 2.62 r_scbond_it 2.574 r_scbond_other 2.573 r_mcbond_it 1.656 r_mcbond_other 1.647 r_angle_refined_deg 1.483 r_angle_other_deg 0.827 r_chiral_restr 0.091 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1776 Nucleic Acid Atoms Solvent Atoms 101 Heterogen Atoms 52
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing