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Structure of Pseudomonas aeruginosa FabF mutant C164Q in complex with a ligand (2S,4R)-2-(thiophen-2-yl)thiazolidine-4-carboxylic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4JB6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298 G3XDA2
Crystal Properties Matthews coefficient Solvent content 2.2 44.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.709 α = 90 b = 84.054 β = 90 c = 137.715 γ = 90
Symmetry Space Group P 21 21 21
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 EIGER X 16M 2019-06-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX IV BEAMLINE BioMAX 0.91840 MAX IV BioMAX
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.78 48.5 85.6 0.05 18.8 5.8 63035
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.78 1.84 0.36
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 4JB6 1.78 48.5 59812 3159 85.36 0.15601 0.15436 0.167 0.18767 0.2014 RANDOM 24.099
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] -0.01 0.04 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.734 r_dihedral_angle_4_deg 16.444 r_dihedral_angle_3_deg 12.375 r_long_range_B_refined 8.096 r_long_range_B_other 8.08 r_scangle_other 7.342 r_dihedral_angle_1_deg 5.689 r_scbond_it 5.422 r_scbond_other 5.422 r_mcangle_it 3.423
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.734 r_dihedral_angle_4_deg 16.444 r_dihedral_angle_3_deg 12.375 r_long_range_B_refined 8.096 r_long_range_B_other 8.08 r_scangle_other 7.342 r_dihedral_angle_1_deg 5.689 r_scbond_it 5.422 r_scbond_other 5.422 r_mcangle_it 3.423 r_mcangle_other 3.423 r_mcbond_it 2.797 r_mcbond_other 2.797 r_angle_refined_deg 1.203 r_angle_other_deg 1.099 r_chiral_restr 0.079 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 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 6068 Nucleic Acid Atoms Solvent Atoms 500 Heterogen Atoms 51
Software Software Software Name Purpose REFMAC refinement xia2 data reduction SCALA data scaling