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Crystal Structure of P. aeruginosa LpxC with N-Hydroxyformamide inhibitor 19
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5U39
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 298 1.6 M AmSO4, 0.5 M LiCl
Crystal Properties Matthews coefficient Solvent content 2.03 39.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.763 α = 90 b = 158.047 β = 101.9 c = 49.072 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 CCD ADSC QUANTUM 315r 2019-08-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 1.00 APS 19-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.9 50 96.5 0.103 0.115 0.05 6.9 5 40247
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 1.93 92.7 0.796 0.898 0.404 0.424 4.4
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5u39 1.9 35.51 35555 1806 89.46 0.169 0.1662 0.2244 0.2322 RANDOM 24.146
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] -0.34 0.24 -0.41 0.59
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.081 r_dihedral_angle_4_deg 16.526 r_dihedral_angle_3_deg 15.738 r_dihedral_angle_1_deg 7.375 r_angle_refined_deg 1.55 r_angle_other_deg 1.314 r_chiral_restr 0.073 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.081 r_dihedral_angle_4_deg 16.526 r_dihedral_angle_3_deg 15.738 r_dihedral_angle_1_deg 7.375 r_angle_refined_deg 1.55 r_angle_other_deg 1.314 r_chiral_restr 0.073 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4609 Nucleic Acid Atoms Solvent Atoms 295 Heterogen Atoms 136
Software Software Software Name Purpose HKL-2000 data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-3000 data reduction MOLREP phasing