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S. aureus GyrB ATPase domain in complex with small molecule inhibitor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 sitting drop, inhibitor soak 7.5 293 19-30% PEG3350, 0.1MHepes, pH 7.5, 0.2M MgCl2, sitting drop, inhibitor soak, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.23 44.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 143.487 α = 90 b = 55.646 β = 100.38 c = 51.103 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 CCD RIGAKU SATURN 944 mirrors 2008-09-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E+ SUPERBRIGHT 1.5418
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 1.85 51.77 97.6 0.095 6.6 3.02 33210 1 1
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 1.85 1.92 92.4 0.335 2.2 2.57 3120
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.85 51.77 33063 1682 97.18 0.2024 0.2007 0.2322 0.2424 RANDOM 26.337
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] -0.35 0.04 0.1 0.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.37 r_dihedral_angle_4_deg 13.598 r_dihedral_angle_3_deg 11.356 r_dihedral_angle_1_deg 4.96 r_scangle_it 2.045 r_scbond_it 1.166 r_angle_refined_deg 0.939 r_angle_other_deg 0.751 r_mcangle_it 0.652 r_mcbond_it 0.331
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.37 r_dihedral_angle_4_deg 13.598 r_dihedral_angle_3_deg 11.356 r_dihedral_angle_1_deg 4.96 r_scangle_it 2.045 r_scbond_it 1.166 r_angle_refined_deg 0.939 r_angle_other_deg 0.751 r_mcangle_it 0.652 r_mcbond_it 0.331 r_mcbond_other 0.068 r_chiral_restr 0.061 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3060 Nucleic Acid Atoms Solvent Atoms 324 Heterogen Atoms 54
Software Software Software Name Purpose d*TREK data scaling d*TREK data reduction AMoRE phasing REFMAC refinement PDB_EXTRACT data extraction JDirector data collection