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The structure of transcriptional factor AraR from Bacteroides thetaiotaomicron VPI in complex with target double strand DNA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 297 20mM Magnesium chloride, 50 mM MOPS, 55% Tacsimate, 5mM hexammine cobalt chloride
Crystal Properties Matthews coefficient Solvent content 5.17 76.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 163.017 α = 90 b = 163.017 β = 90 c = 163.017 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 315r 2013-03-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97903 APS 19-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 3.05 50 99.7 0.11 11.1 5.2 27538
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.05 3.08 100 0.851 5.2 667
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 3.06 49.2 25711 1349 97.76 0.2011 0.1996 0.2117 0.2299 0.2394 RANDOM 64.319
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.559 r_dihedral_angle_3_deg 14.882 r_dihedral_angle_4_deg 11.956 r_dihedral_angle_1_deg 6.434 r_angle_refined_deg 1.328 r_angle_other_deg 0.915 r_chiral_restr 0.071 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.559 r_dihedral_angle_3_deg 14.882 r_dihedral_angle_4_deg 11.956 r_dihedral_angle_1_deg 6.434 r_angle_refined_deg 1.328 r_angle_other_deg 0.915 r_chiral_restr 0.071 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3619 Nucleic Acid Atoms 1107 Solvent Atoms 16 Heterogen Atoms 20
Software Software Software Name Purpose SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-3000 data reduction HKL-3000 phasing Coot model building SBC-Collect data collection