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PanDDA analysis group deposition -- Crystal Structure of BAZ2B after initial refinement with no ligand modelled (structure 39)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3G0L 3G0L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 277 30% PEG600 -- 0.1M MES pH 6.0
Crystal Properties Matthews coefficient Solvent content 3.53 65.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.33 α = 90 b = 96.613 β = 90 c = 57.758 γ = 90
Symmetry Space Group C 2 2 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 2M 2013-03-10 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.9200 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 1.88 28.88 99.5 0.061 0.066 0.026 0.999 17.9 6.6 18680
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 1.88 1.93 96.5 0.78 0.85 0.332 0.847 6.3 1256
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 3G0L 1.88 28.88 17747 918 99.45 0.176 0.1743 0.1858 0.207 0.2201 RANDOM 38.25
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] 4.18 -1.44 -2.74
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.106 r_dihedral_angle_4_deg 22.042 r_dihedral_angle_3_deg 12.053 r_dihedral_angle_1_deg 6.316 r_mcangle_it 5.146 r_mcbond_other 3.945 r_mcbond_it 3.944 r_angle_refined_deg 1.987 r_angle_other_deg 1.109 r_chiral_restr 0.127
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.106 r_dihedral_angle_4_deg 22.042 r_dihedral_angle_3_deg 12.053 r_dihedral_angle_1_deg 6.316 r_mcangle_it 5.146 r_mcbond_other 3.945 r_mcbond_it 3.944 r_angle_refined_deg 1.987 r_angle_other_deg 1.109 r_chiral_restr 0.127 r_bond_refined_d 0.022 r_gen_planes_refined 0.012 r_bond_other_d 0.004 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 930 Nucleic Acid Atoms Solvent Atoms 204 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction XDS data reduction REFMAC phasing