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Crystal structure of S. aureus Homoserine Dehydrogenase at pH8.5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 0.2M Magnesium acetate, 14% PEG8000, 0.2M Bicine, pH8.5, 5% Glycerol
Crystal Properties Matthews coefficient Solvent content 2.49 50.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.87 α = 90 b = 117.51 β = 90 c = 119.53 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 MARMOSAIC 225 mm CCD 2012-07-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 0.95372 ESRF BM14
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 2.2 119.53 99.6 0.075 0.082 0.033 15.2 5.6 52569 52569 3 44.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.32 100 0.486 0.486 0.221 1.6 5.6 7591
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 MOLECULAR REPLACEMENT THROUGHOUT 2.2 39.2 50125 2689 99.97 0.203 0.2011 0.2058 0.2373 0.2431 RANDOM 30.9
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] -0.53 1.32 -0.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.012 r_dihedral_angle_4_deg 14.016 r_dihedral_angle_3_deg 13.822 r_dihedral_angle_1_deg 6.183 r_mcangle_it 3.171 r_mcbond_it 1.984 r_mcbond_other 1.945 r_angle_refined_deg 1.306 r_angle_other_deg 0.928 r_chiral_restr 0.072
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.012 r_dihedral_angle_4_deg 14.016 r_dihedral_angle_3_deg 13.822 r_dihedral_angle_1_deg 6.183 r_mcangle_it 3.171 r_mcbond_it 1.984 r_mcbond_other 1.945 r_angle_refined_deg 1.306 r_angle_other_deg 0.928 r_chiral_restr 0.072 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.004 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5864 Nucleic Acid Atoms Solvent Atoms 302 Heterogen Atoms 95
Software Software Software Name Purpose HKL-3000 data collection iMOSFLM data reduction SCALA data scaling PHASER phasing Coot model building REFMAC refinement PDB_EXTRACT data extraction