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Co-Crystal structure of P. aeruginosa LpxC-achn975 complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4J3D
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 294 25% PEG 3350 and 0.1 M Bis-Tris pH 5.5
Crystal Properties Matthews coefficient Solvent content 2.3 46.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.887 α = 90 b = 66.86 β = 90.81 c = 63.728 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 MARMOSAIC 300 mm CCD 2015-05-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 1.0 APS 21-ID-F
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.2 19.49 99.09 0.918 9.12 2 14425
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 2.26 0.983
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4J3D 2.2 19.49 14425 759 99.09 0.17938 0.17628 0.1868 0.23888 0.239 RANDOM 26.432
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] 0.02 0.04 0.02 -0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.898 r_dihedral_angle_4_deg 17.645 r_dihedral_angle_3_deg 15.559 r_dihedral_angle_1_deg 6.717 r_long_range_B_refined 5.822 r_long_range_B_other 5.801 r_scangle_other 4.581 r_mcangle_it 3.065 r_mcangle_other 3.064 r_scbond_it 2.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.898 r_dihedral_angle_4_deg 17.645 r_dihedral_angle_3_deg 15.559 r_dihedral_angle_1_deg 6.717 r_long_range_B_refined 5.822 r_long_range_B_other 5.801 r_scangle_other 4.581 r_mcangle_it 3.065 r_mcangle_other 3.064 r_scbond_it 2.93 r_scbond_other 2.929 r_mcbond_it 2.064 r_mcbond_other 2.052 r_angle_refined_deg 1.781 r_angle_other_deg 0.904 r_chiral_restr 0.105 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2329 Nucleic Acid Atoms Solvent Atoms 63 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing