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Crystal structure of human ATAD2 bromodomain in complex with N-(4-bromo-3-(3-methylpyrrolidin-1-yl)sulfonyl)phenyl)-2-(-4-cyclopropyl-4-methyl-2,5-dioxoimidazolidin-1-yl)acetamide
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 0.1M trisHCl pH 7.0-8.0, 1.2-1.5M ammonium sulphate
Crystal Properties Matthews coefficient Solvent content 4.06 69.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.407 α = 90 b = 79.407 β = 90 c = 137.969 γ = 120
Symmetry Space Group P 65 2 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-F 2017-01-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.97950 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 1.85 68.77 99.2 0.062 1 20.7 18.9 22564
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.95 0.508 0.961 6.1
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 (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS FREE R-VALUE 1.85 68.768 22534 1120 99.194 0.191 0.1902 0.2152 0.2115 30.81
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] 0.141 0.07 0.141 -0.457
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.184 r_dihedral_angle_3_deg 13.759 r_dihedral_angle_4_deg 9.97 r_lrange_it 8.614 r_lrange_other 8.611 r_scangle_it 5.868 r_scangle_other 5.865 r_dihedral_angle_1_deg 4.427 r_scbond_it 3.68 r_scbond_other 3.324
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.184 r_dihedral_angle_3_deg 13.759 r_dihedral_angle_4_deg 9.97 r_lrange_it 8.614 r_lrange_other 8.611 r_scangle_it 5.868 r_scangle_other 5.865 r_dihedral_angle_1_deg 4.427 r_scbond_it 3.68 r_scbond_other 3.324 r_mcangle_other 3.07 r_mcangle_it 3.064 r_mcbond_it 2.082 r_mcbond_other 2.068 r_angle_other_deg 1.228 r_angle_refined_deg 1.178 r_xyhbond_nbd_refined 0.208 r_symmetry_xyhbond_nbd_refined 0.2 r_nbd_refined 0.188 r_nbd_other 0.181 r_symmetry_nbd_other 0.171 r_nbtor_refined 0.157 r_symmetry_nbd_refined 0.118 r_symmetry_nbtor_other 0.079 r_chiral_restr 0.059 r_bond_refined_d 0.004 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1084 Nucleic Acid Atoms Solvent Atoms 222 Heterogen Atoms 53
Software Software Software Name Purpose REFMAC refinement XDS data reduction autoPROC data scaling Aimless data scaling