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N-TERMINAL BROMODOMAIN OF HUMAN BRD4 WITH compound 3bg
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other in house model
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 293 30%w/v PEG 4K, 0.2M Na Acet, 0.1M TRIS pH 8.5
Crystal Properties Matthews coefficient Solvent content 2.09 41.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.351 α = 90 b = 52.103 β = 90 c = 57.176 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 PIXEL DECTRIS PILATUS 6M 2018-07-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.91587 Diamond I04-1
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 1.31 34.02 98.6 0.035 0.989 17.9 6.1 30602
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 1.31 1.34 97.2 0.996 0.65 5.2
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE in house model 1.31 34 30543 1562 98.193 0.197 0.1954 0.1966 0.2205 0.2218 25.147
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] 0.714 -0.278 -0.436
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.686 r_dihedral_angle_4_deg 14.401 r_dihedral_angle_3_deg 13.078 r_lrange_it 5.704 r_lrange_other 5.702 r_dihedral_angle_1_deg 5.444 r_scangle_it 3.206 r_scangle_other 3.204 r_mcangle_it 2.297 r_mcangle_other 2.297
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.686 r_dihedral_angle_4_deg 14.401 r_dihedral_angle_3_deg 13.078 r_lrange_it 5.704 r_lrange_other 5.702 r_dihedral_angle_1_deg 5.444 r_scangle_it 3.206 r_scangle_other 3.204 r_mcangle_it 2.297 r_mcangle_other 2.297 r_scbond_it 1.967 r_scbond_other 1.966 r_mcbond_it 1.423 r_mcbond_other 1.422 r_angle_other_deg 1.212 r_angle_refined_deg 1.18 r_nbd_refined 0.194 r_symmetry_nbd_refined 0.181 r_nbd_other 0.173 r_nbtor_refined 0.171 r_symmetry_nbd_other 0.168 r_symmetry_xyhbond_nbd_refined 0.163 r_xyhbond_nbd_refined 0.111 r_symmetry_nbtor_other 0.077 r_chiral_restr 0.056 r_gen_planes_refined 0.007 r_bond_refined_d 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 1061 Nucleic Acid Atoms Solvent Atoms 194 Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling