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N-TERMINAL BROMODOMAIN OF HUMAN BRD4 WITH 1,3-dimethyl-5-(1-((tetrahydro-2H-pyran-4-yl)methyl)-1H-benzo[d]imidazol-2-yl)pyridin-2(1H)-one
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other not published
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1M BTP pH8.5, 20% PEG3350
Crystal Properties Matthews coefficient Solvent content 2.19 43.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.694 α = 90 b = 43.252 β = 90 c = 79.181 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 2015-04-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.97625 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.8 79.18 99.9 0.996 10.5 6.1 12890
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.94 99.9 0.781 2.7 6.1
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 not published 1.8 39.59 12844 627 99.86 0.201 0.1987 0.2068 0.2549 0.2612 29.2
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] 1.497 -0.578 -0.919
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.533 r_dihedral_angle_3_deg 13.028 r_dihedral_angle_4_deg 10.948 r_lrange_it 8.454 r_lrange_other 8.454 r_scangle_it 6.207 r_scangle_other 6.204 r_dihedral_angle_1_deg 5.602 r_mcangle_other 4.206 r_mcangle_it 4.194
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.533 r_dihedral_angle_3_deg 13.028 r_dihedral_angle_4_deg 10.948 r_lrange_it 8.454 r_lrange_other 8.454 r_scangle_it 6.207 r_scangle_other 6.204 r_dihedral_angle_1_deg 5.602 r_mcangle_other 4.206 r_mcangle_it 4.194 r_scbond_it 3.88 r_scbond_other 3.877 r_mcbond_it 2.826 r_mcbond_other 2.789 r_angle_refined_deg 1.296 r_angle_other_deg 1.185 r_nbd_refined 0.195 r_nbd_other 0.195 r_xyhbond_nbd_refined 0.187 r_symmetry_nbd_other 0.174 r_symmetry_xyhbond_nbd_refined 0.174 r_nbtor_refined 0.173 r_symmetry_nbd_refined 0.168 r_symmetry_nbtor_other 0.081 r_chiral_restr 0.059 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 1062 Nucleic Acid Atoms Solvent Atoms 196 Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling