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First bromodomain of BRD4 bound to inhibitor XD40
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 Tacsimate
Crystal Properties Matthews coefficient Solvent content 2.24 45.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.08 α = 90 b = 43.5 β = 90 c = 79.11 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 2013-01-18 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 2 43.5 99.8 0.081 9.5 4 9604
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 2.11 100 0.512 2.4 1368
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 2.15 39.55 6975 764 99.65 0.21102 0.20832 0.2191 0.23496 0.2464 RANDOM 40.812
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] 3.93 -1.74 -2.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.529 r_dihedral_angle_3_deg 16.776 r_dihedral_angle_4_deg 13.604 r_dihedral_angle_1_deg 5.525 r_long_range_B_refined 4.21 r_long_range_B_other 4.152 r_mcangle_it 1.703 r_mcangle_other 1.702 r_scangle_other 1.641 r_angle_refined_deg 1.322
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.529 r_dihedral_angle_3_deg 16.776 r_dihedral_angle_4_deg 13.604 r_dihedral_angle_1_deg 5.525 r_long_range_B_refined 4.21 r_long_range_B_other 4.152 r_mcangle_it 1.703 r_mcangle_other 1.702 r_scangle_other 1.641 r_angle_refined_deg 1.322 r_mcbond_it 1.111 r_mcbond_other 1.105 r_scbond_it 1.061 r_scbond_other 1.06 r_angle_other_deg 0.789 r_chiral_restr 0.065 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_gen_planes_other 0.006 r_bond_other_d 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 1056 Nucleic Acid Atoms Solvent Atoms 62 Heterogen Atoms 26
Software Software Software Name Purpose REFMAC refinement SCALA data scaling PHASER phasing iMOSFLM data reduction