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PanDDA analysis group deposition -- CRYSTAL STRUCTURE OF THE BROMODOMAIN OF HUMAN NUCLEOSOME-REMODELING FACTOR SUBUNIT BPTF in complex with FMOPL000280a
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 2.02 39.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 112.04 α = 90 b = 27.43 β = 96.06 c = 38.24 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 1.39 29.97 97 0.05 0.061 0.033 0.999 13.2 3.2 22942
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 1.39 1.43 94.7 0.824 1.024 0.599 0.465 2.7 1644
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 1.39 55.77 21795 1147 97 0.2028 0.2008 0.2226 0.2409 0.2526 RANDOM 18.832
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] 0.21 -0.58 -0.41 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.358 r_dihedral_angle_4_deg 18.173 r_dihedral_angle_3_deg 14.06 r_dihedral_angle_1_deg 5.169 r_mcangle_it 1.862 r_angle_refined_deg 1.378 r_mcbond_it 1.031 r_mcbond_other 1.03 r_angle_other_deg 0.923 r_chiral_restr 0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.358 r_dihedral_angle_4_deg 18.173 r_dihedral_angle_3_deg 14.06 r_dihedral_angle_1_deg 5.169 r_mcangle_it 1.862 r_angle_refined_deg 1.378 r_mcbond_it 1.031 r_mcbond_other 1.03 r_angle_other_deg 0.923 r_chiral_restr 0.08 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 983 Nucleic Acid Atoms Solvent Atoms 152 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction XDS data reduction REFMAC phasing