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Structure of P. aeruginosa LpxC with compound 8: (2RS)-4-(5-(2-Fluoro-4-methoxyphenyl)-2-oxooxazol-3(2H)-yl)-N-hydroxy-2-methyl-2-(methylsulfonyl)butanamide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VES
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 26-30% (w/v) PEG 4000, 0.1 M Tris pH 8.5
Crystal Properties Matthews coefficient Solvent content 2.26 45.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.754 α = 90 b = 66.614 β = 90.415 c = 62.926 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 PIXEL DECTRIS PILATUS 2M 2012-09-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 0.9796 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim I (All) CC (Half) 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 1.75 35.8 94.9 0.1 0.995 6.4 1.76 55874 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.75 1.86 95.3 1.039 0.439 0.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2ves 1.75 35.779 29727 1487 99.515 0.181 0.1784 0.1788 0.2234 0.224 25.196
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] 0.375 0.446 -0.842 0.461
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.485 r_dihedral_angle_4_deg 18.511 r_dihedral_angle_3_deg 13.296 r_dihedral_angle_1_deg 7.038 r_lrange_it 5.735 r_lrange_other 5.719 r_scangle_it 4.639 r_scangle_other 4.638 r_scbond_it 3.062 r_scbond_other 3.061
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.485 r_dihedral_angle_4_deg 18.511 r_dihedral_angle_3_deg 13.296 r_dihedral_angle_1_deg 7.038 r_lrange_it 5.735 r_lrange_other 5.719 r_scangle_it 4.639 r_scangle_other 4.638 r_scbond_it 3.062 r_scbond_other 3.061 r_mcangle_other 2.745 r_mcangle_it 2.742 r_mcbond_it 1.974 r_mcbond_other 1.966 r_angle_refined_deg 1.628 r_angle_other_deg 1.386 r_nbd_other 0.206 r_nbd_refined 0.202 r_symmetry_nbd_other 0.178 r_nbtor_refined 0.164 r_xyhbond_nbd_refined 0.151 r_symmetry_xyhbond_nbd_refined 0.142 r_symmetry_nbd_refined 0.082 r_chiral_restr 0.076 r_symmetry_nbtor_other 0.076 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2296 Nucleic Acid Atoms Solvent Atoms 138 Heterogen Atoms 34
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing