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Crystal structure of the bromodomain of human BRM (SMARCA2) in complex with a hydroxyphenyl propenone inhibitor 17
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4QY4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 277.15 20% PEG 6K, 10% ethyleneglycol, 0.1 Hepes pH 7, 0.01M ZnCl2
Crystal Properties Matthews coefficient Solvent content 2.45 49.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.997 α = 90 b = 63.997 β = 90 c = 89.16 γ = 120
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 2015-04-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.9795 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 1.7 27.71 99.8 0.07 0.025 18.6 10.4 45175 45175
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 1.7 1.73 96.8 1.325 2 10
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 4QY4 1.7 27.71 43054 2088 99.81 0.20112 0.19912 0.2065 0.24144 0.2503 RANDOM 33.035
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] 0.41 0.2 0.41 -1.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.675 r_dihedral_angle_4_deg 16.742 r_dihedral_angle_3_deg 14.115 r_dihedral_angle_1_deg 5.525 r_long_range_B_refined 5.212 r_long_range_B_other 5.174 r_scangle_other 3.352 r_mcangle_other 2.127 r_mcangle_it 2.126 r_scbond_it 2.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.675 r_dihedral_angle_4_deg 16.742 r_dihedral_angle_3_deg 14.115 r_dihedral_angle_1_deg 5.525 r_long_range_B_refined 5.212 r_long_range_B_other 5.174 r_scangle_other 3.352 r_mcangle_other 2.127 r_mcangle_it 2.126 r_scbond_it 2.11 r_scbond_other 2.109 r_angle_refined_deg 1.762 r_mcbond_it 1.402 r_mcbond_other 1.4 r_angle_other_deg 1.023 r_chiral_restr 0.106 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 r_bond_other_d 0.002 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 2789 Nucleic Acid Atoms Solvent Atoms 177 Heterogen Atoms 68
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing