☰ Navigation Tabs
BRD4 in complex with Acetyl-Lys
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5LRQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 0.1 M Buffer system 3 (1 M Tris, 1 M BICINE, pH 8.5), 34-44% Precipitant Solution 3 (20% PEG 4000, 40%) and 60-80 mM Halogens Mix (NaF, NaBr and NaI) solution
Crystal Properties Matthews coefficient Solvent content 2.11 41.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.329 α = 90 b = 43.265 β = 90 c = 79.848 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 2019-10-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.898442 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 1.18 39.92 100 0.136 0.147 0.056 0.999 8.9 13.1 43405
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.18 1.2 6.124 6.775 2.869 0.372 10.6
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-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 5LRQ 1.18 39.92 43339 2120 99.958 0.206 0.2044 0.2313 0.2165 19.433
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] 2.194 -1.511 -0.683
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.315 r_dihedral_angle_4_deg 14.076 r_dihedral_angle_3_deg 13.342 r_dihedral_angle_1_deg 5.926 r_lrange_it 5.522 r_scangle_it 3.9 r_scbond_it 2.816 r_mcangle_it 2.153 r_angle_refined_deg 1.836 r_mcbond_it 1.519
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.315 r_dihedral_angle_4_deg 14.076 r_dihedral_angle_3_deg 13.342 r_dihedral_angle_1_deg 5.926 r_lrange_it 5.522 r_scangle_it 3.9 r_scbond_it 2.816 r_mcangle_it 2.153 r_angle_refined_deg 1.836 r_mcbond_it 1.519 r_nbtor_refined 0.324 r_symmetry_nbd_refined 0.26 r_nbd_refined 0.228 r_symmetry_xyhbond_nbd_refined 0.226 r_xyhbond_nbd_refined 0.197 r_chiral_restr 0.116 r_bond_refined_d 0.011 r_gen_planes_refined 0.011
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1076 Nucleic Acid Atoms Solvent Atoms 162 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement REFMAC refinement Aimless data scaling xia2 data reduction PHASER phasing