☰ Navigation Tabs
Structure of P. aeruginosa LpxC with compound 12: (2R)-4-(6-(2-Fluoro-4-methoxyphenyl)-3-oxo-1H-pyrrolo[1,2-c]imidazol-2(3H)-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 2.27 45.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.583 α = 90 b = 67.018 β = 90.761 c = 63.08 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 2013-06-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 1.00 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.196 45.931 94.8 0.165 0.983 3.9 1.78 28187 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.33 90.7 0.161 0.5
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 2.196 45.931 15110 756 99.18 0.218 0.2156 0.2171 0.2688 0.2688 38.117
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] -0.112 -0.271 -1.355 1.474
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.822 r_dihedral_angle_4_deg 17.776 r_dihedral_angle_3_deg 17.12 r_dihedral_angle_1_deg 8.333 r_lrange_it 6.218 r_lrange_other 6.216 r_scangle_it 4.509 r_scangle_other 4.508 r_mcangle_it 3.887 r_mcangle_other 3.886
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.822 r_dihedral_angle_4_deg 17.776 r_dihedral_angle_3_deg 17.12 r_dihedral_angle_1_deg 8.333 r_lrange_it 6.218 r_lrange_other 6.216 r_scangle_it 4.509 r_scangle_other 4.508 r_mcangle_it 3.887 r_mcangle_other 3.886 r_scbond_it 2.978 r_scbond_other 2.977 r_mcbond_other 2.656 r_mcbond_it 2.655 r_angle_refined_deg 1.812 r_angle_other_deg 1.294 r_nbd_refined 0.196 r_symmetry_nbd_other 0.185 r_symmetry_xyhbond_nbd_refined 0.168 r_nbtor_refined 0.166 r_nbd_other 0.147 r_xyhbond_nbd_refined 0.143 r_symmetry_nbd_refined 0.135 r_symmetry_nbtor_other 0.076 r_chiral_restr 0.065 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_symmetry_xyhbond_nbd_other 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2279 Nucleic Acid Atoms Solvent Atoms 9 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing