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Crystal structure of Rot, a global regulator of virulence genes in Staphylococcus aureus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 4.6 285 1.5M Ammonium chloride, 0.1M Sodium acetate trihydrate PH 4.6, VAPOR DIFFUSION, temperature 285K
Crystal Properties Matthews coefficient Solvent content 2.24 44.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 31.747 α = 90 b = 71.505 β = 99.38 c = 65.68 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 IMAGE PLATE MAR scanner 345 mm plate 2014-03-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R 0.9791
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.77 50 27813
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 SAD THROUGHOUT 1.77 32.42 26399 1396 97.81 0.16588 0.16315 0.2172 0.2512 RANDOM 31.736
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] -0.61 -0.37 1.68 -0.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.105 r_sphericity_free 22.942 r_dihedral_angle_4_deg 19.509 r_dihedral_angle_3_deg 13.597 r_sphericity_bonded 11.961 r_scangle_other 4.932 r_long_range_B_other 4.604 r_long_range_B_refined 4.602 r_dihedral_angle_1_deg 4.538 r_scbond_it 4.088
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.105 r_sphericity_free 22.942 r_dihedral_angle_4_deg 19.509 r_dihedral_angle_3_deg 13.597 r_sphericity_bonded 11.961 r_scangle_other 4.932 r_long_range_B_other 4.604 r_long_range_B_refined 4.602 r_dihedral_angle_1_deg 4.538 r_scbond_it 4.088 r_scbond_other 4.074 r_mcangle_it 3.576 r_mcangle_other 3.575 r_mcbond_it 3.46 r_mcbond_other 3.46 r_rigid_bond_restr 2.831 r_angle_refined_deg 1.089 r_angle_other_deg 0.748 r_chiral_restr 0.064 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2000 Nucleic Acid Atoms Solvent Atoms 140 Heterogen Atoms 6
Software Software Software Name Purpose HKL-2000 data collection PHENIX model building REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHENIX phasing