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PanDDA analysis group deposition -- CRYSTAL STRUCTURE OF THE BROMODOMAIN OF HUMAN NUCLEOSOME-REMODELING FACTOR SUBUNIT BPTF in complex with FMOPL000292a
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3UV2 3UV2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 30% PEG4000, 0.1M Tris pH 8.5, 0.2M MgCl2
Crystal Properties Matthews coefficient Solvent content 2 38.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 111.54 α = 90 b = 27.371 β = 95.8 c = 38.1 γ = 90
Symmetry Space Group C 1 2 1
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 2017-03-09 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.92819 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 55.48 96.1 0.031 0.037 0.021 0.999 14.5 2.7 36991
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 1.24 82.9 0.246 0.32 0.202 0.895 1.7 4615
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT 3UV2 1.17 55.55 35176 1815 95.97 0.2088 0.2079 0.2242 0.2254 0.2395 RANDOM 15.816
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] 0.57 -0.55 -0.34 -0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.649 r_dihedral_angle_4_deg 17.003 r_dihedral_angle_3_deg 13.411 r_dihedral_angle_1_deg 4.623 r_mcangle_it 1.37 r_angle_refined_deg 1.246 r_angle_other_deg 0.901 r_mcbond_other 0.757 r_mcbond_it 0.755 r_chiral_restr 0.072
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.649 r_dihedral_angle_4_deg 17.003 r_dihedral_angle_3_deg 13.411 r_dihedral_angle_1_deg 4.623 r_mcangle_it 1.37 r_angle_refined_deg 1.246 r_angle_other_deg 0.901 r_mcbond_other 0.757 r_mcbond_it 0.755 r_chiral_restr 0.072 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 983 Nucleic Acid Atoms Solvent Atoms 154 Heterogen Atoms 29
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction XDS data reduction REFMAC phasing