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Crystal Structure of the Staphylococcus aureus Enoyl-Acyl Carrier Protein Reductase (FabI) in apo form (two molecules in AU)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2PD3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 295 15% PEG 400, 0.1M Tris pH 8.0, 4% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.35 47.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 115.099 α = 90 b = 74.462 β = 119.35 c = 70.609 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 ADSC QUANTUM 270 mirrors 2008-05-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 6C1 1.000 PAL/PLS 6C1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.75 50 96 0.09 0.17 12.7 4.2 11436 10886 2 2 36
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.75 2.85 47 0.18 0.17 2.4 2.1 635
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 2PD3 2.75 34.96 11436 10886 548 84.04 0.244 0.24329 0.24157 0.2521 0.27823 0.2748 RANDOM 36.972
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] 0.12 0.03 -0.14 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 45.602 r_dihedral_angle_3_deg 29.959 r_dihedral_angle_4_deg 27.305 r_dihedral_angle_1_deg 22.748 r_scangle_it 7.129 r_scbond_it 5.057 r_angle_refined_deg 4.26 r_mcangle_it 3.073 r_mcbond_it 2.224 r_chiral_restr 0.736
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 45.602 r_dihedral_angle_3_deg 29.959 r_dihedral_angle_4_deg 27.305 r_dihedral_angle_1_deg 22.748 r_scangle_it 7.129 r_scbond_it 5.057 r_angle_refined_deg 4.26 r_mcangle_it 3.073 r_mcbond_it 2.224 r_chiral_restr 0.736 r_symmetry_vdw_refined 0.464 r_nbd_refined 0.435 r_nbtor_refined 0.398 r_xyhbond_nbd_refined 0.297 r_bond_refined_d 0.046 r_gen_planes_refined 0.016
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3157 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose HKL-2000 data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling