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N-TERMINAL BROMODOMAIN OF HUMAN BRD4 with I-BET567
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other in house
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 293 0.1M Bis-Tris prop pH7.5, 0.02M sodium potassium, 20% v/v PEG3350
Crystal Properties Matthews coefficient Solvent content 2.13 42.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.222 α = 90 b = 48.995 β = 90 c = 60.865 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 CCD RIGAKU SATURN A200 2015-05-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E+ SUPERBRIGHT 1.54178
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 1.67 60.87 99 0.034 29.1 4.4 15470
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 1.67 1.8 96.9 0.243 5.5 3.7
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 1.67 28.609 15357 775 98.695 0.169 0.1667 0.1798 0.2101 0.2185 24.382
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] -0.289 -0.172 0.461
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.225 r_dihedral_angle_4_deg 21.08 r_dihedral_angle_3_deg 12.291 r_dihedral_angle_1_deg 5.811 r_lrange_it 5.754 r_lrange_other 5.752 r_scangle_it 3.65 r_scangle_other 3.648 r_scbond_it 2.235 r_scbond_other 2.233
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.225 r_dihedral_angle_4_deg 21.08 r_dihedral_angle_3_deg 12.291 r_dihedral_angle_1_deg 5.811 r_lrange_it 5.754 r_lrange_other 5.752 r_scangle_it 3.65 r_scangle_other 3.648 r_scbond_it 2.235 r_scbond_other 2.233 r_mcangle_it 2.226 r_mcangle_other 2.224 r_mcbond_other 1.432 r_mcbond_it 1.431 r_angle_refined_deg 1.323 r_angle_other_deg 1.292 r_nbd_refined 0.204 r_nbd_other 0.183 r_symmetry_nbd_refined 0.181 r_nbtor_refined 0.178 r_symmetry_xyhbond_nbd_refined 0.178 r_symmetry_nbd_other 0.177 r_xyhbond_nbd_refined 0.14 r_symmetry_nbtor_other 0.08 r_chiral_restr 0.066 r_bond_refined_d 0.006 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1052 Nucleic Acid Atoms Solvent Atoms 193 Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling