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Crystal structure of BRD2 second bromodomain in complex with SGC-CBP30 chemical probe
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 0.2 M sodium/potassium tartrate, 20% PEG 3350, 10% ethylene glycol
Crystal Properties Matthews coefficient Solvent content 2.27 45.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.761 α = 90 b = 71.806 β = 90 c = 31.996 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 PIXEL DECTRIS PILATUS 6M 2014-06-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03
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 1.4 42.52 99.3 0.079 0.027 22.3 9.2 224988 24507 5.314
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 1.4 1.48 95.9 0.165 11.6 7.3
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 1.4 42.52 23265 1203 99.18 0.16078 0.1597 0.1593 0.18204 0.1821 RANDOM 11.732
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 -0.24 0.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.945 r_dihedral_angle_4_deg 23.617 r_dihedral_angle_3_deg 11.239 r_long_range_B_refined 5.048 r_dihedral_angle_1_deg 4.867 r_long_range_B_other 4.722 r_scangle_other 2.256 r_angle_refined_deg 1.565 r_scbond_it 1.372 r_scbond_other 1.371
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.945 r_dihedral_angle_4_deg 23.617 r_dihedral_angle_3_deg 11.239 r_long_range_B_refined 5.048 r_dihedral_angle_1_deg 4.867 r_long_range_B_other 4.722 r_scangle_other 2.256 r_angle_refined_deg 1.565 r_scbond_it 1.372 r_scbond_other 1.371 r_mcangle_other 1.347 r_mcangle_it 1.343 r_angle_other_deg 1.289 r_mcbond_it 0.792 r_mcbond_other 0.757 r_chiral_restr 0.084 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_bond_other_d 0.004 r_gen_planes_other 0.002 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 910 Nucleic Acid Atoms Solvent Atoms 127 Heterogen Atoms 52
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling PHASER phasing