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Crystal structure of the engineered sulfonylurea repressor EsR L11-C06, bound to ethametsulfuron-methyl
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2NS8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 295 0.05 M Magnesium chloride
0.1 M HEPES pH 7.5
30% v/v Polyethylene glycol monomethyl ether 550
Crystal Properties Matthews coefficient Solvent content 2.28 46.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.819 α = 90 b = 71.022 β = 92.185 c = 90.526 γ = 90
Symmetry Space Group P 1 21 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 CCD MAR CCD 165 mm 2009-10-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 4.2.2 1 ALS 4.2.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.8 29.842 99.6 0.105 7.9 5.6 20657
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.8 2.872 0.462
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.8 29.842 20657 1073 99.418 0.195 0.1901 0.2005 0.2777 0.2856 61.986
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] -2.937 -0.655 4.861 -1.868
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.103 r_dihedral_angle_6_deg 13.99 r_lrange_it 11.453 r_lrange_other 11.453 r_scangle_it 9.459 r_scangle_other 9.458 r_mcangle_it 7.553 r_mcangle_other 7.552 r_dihedral_angle_2_deg 7.498 r_dihedral_angle_1_deg 7.225
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.103 r_dihedral_angle_6_deg 13.99 r_lrange_it 11.453 r_lrange_other 11.453 r_scangle_it 9.459 r_scangle_other 9.458 r_mcangle_it 7.553 r_mcangle_other 7.552 r_dihedral_angle_2_deg 7.498 r_dihedral_angle_1_deg 7.225 r_scbond_it 6.094 r_scbond_other 6.093 r_mcbond_it 5.093 r_mcbond_other 5.093 r_angle_refined_deg 1.779 r_angle_other_deg 0.603 r_nbd_refined 0.242 r_symmetry_xyhbond_nbd_refined 0.24 r_symmetry_nbd_refined 0.234 r_symmetry_nbd_other 0.191 r_nbtor_refined 0.186 r_nbd_other 0.175 r_xyhbond_nbd_refined 0.167 r_chiral_restr 0.084 r_symmetry_nbtor_other 0.078 r_bond_refined_d 0.007 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 6044 Nucleic Acid Atoms Solvent Atoms 13 Heterogen Atoms 112
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing