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Crystal structure of a probable NADH-dependent flavin oxidoreductase from Staphylococcus aureus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 30% PEG200, 0.1M MES, 5mM I3C, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.24 45.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.941 α = 90 b = 75.342 β = 90 c = 80.736 γ = 90
Symmetry Space Group P 21 21 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 CCD MAR CCD 165 mm Si(111) double-crystal monochromator 2009-12-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-BM 0.97920 APS 17-BM
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 1.65 50 99.7 0.097 14.5 14.3 51898
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) 1.65 1.69 96.5 0.405 11.4 3278
Refinement Statistics Diffraction ID Structure Solution Method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SAD 1.65 34.964 51815 2642 99.671 0.1812 0.1831 0.1915 0.1928 24.733
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] 0.022 -0.003 -0.019
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.899 r_dihedral_angle_3_deg 12.968 r_dihedral_angle_4_deg 11.404 r_dihedral_angle_1_deg 5.658 r_scangle_it 3.618 r_scbond_it 2.173 r_mcangle_it 1.338 r_angle_refined_deg 1.252 r_mcbond_it 0.714 r_nbtor_refined 0.309
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.899 r_dihedral_angle_3_deg 12.968 r_dihedral_angle_4_deg 11.404 r_dihedral_angle_1_deg 5.658 r_scangle_it 3.618 r_scbond_it 2.173 r_mcangle_it 1.338 r_angle_refined_deg 1.252 r_mcbond_it 0.714 r_nbtor_refined 0.309 r_nbd_refined 0.194 r_symmetry_vdw_refined 0.186 r_xyhbond_nbd_refined 0.113 r_symmetry_hbond_refined 0.111 r_chiral_restr 0.087 r_bond_refined_d 0.01 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2989 Nucleic Acid Atoms Solvent Atoms 279 Heterogen Atoms 30
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SHARP phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction JDirector data collection HKL-2000 data reduction HKL-2000 data scaling