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PanDDA analysis group deposition -- Crystal Structure of BAZ2B after initial refinement with no ligand modelled (structure 4)
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 3.58 65.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.128 α = 90 b = 96.768 β = 90 c = 57.955 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 1.79 28.98 99.2 0.052 0.057 0.022 0.999 19.6 6.6 22083
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 1.79 1.82 91.6 0.832 0.907 0.355 0.813 5.9 1154
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 1.79 28.98 20979 1090 98.99 0.1833 0.1819 0.1917 0.2105 0.2197 RANDOM 34.35
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] 3.18 -1.19 -1.99
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.243 r_dihedral_angle_4_deg 21.467 r_dihedral_angle_3_deg 12.524 r_dihedral_angle_1_deg 6.211 r_mcangle_it 4.839 r_mcbond_it 3.701 r_mcbond_other 3.687 r_angle_refined_deg 2.107 r_angle_other_deg 1.138 r_chiral_restr 0.123
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.243 r_dihedral_angle_4_deg 21.467 r_dihedral_angle_3_deg 12.524 r_dihedral_angle_1_deg 6.211 r_mcangle_it 4.839 r_mcbond_it 3.701 r_mcbond_other 3.687 r_angle_refined_deg 2.107 r_angle_other_deg 1.138 r_chiral_restr 0.123 r_bond_refined_d 0.027 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