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Crystal structure of 3-hydroxydecanoyl-acyl carrier protein dehydratase (FabA) from Pseudomonas aeruginosa in complex with DDD00078426
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4CL6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 293 PEG 4000, Ammonium sulfate, sodium citrate
Crystal Properties Matthews coefficient Solvent content 3.08 60.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 113.64 α = 90 b = 143.5 β = 114.08 c = 77.78 γ = 90
Symmetry Space Group C 1 2 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 PILATUS3 2M 2018-10-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04
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 1.94 66.08 99.8 0.068 0.998 10.6 3.7 83719
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 1.94 1.97 0.456 1
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 4CL6 1.94 66.08 79490 4229 99.78 0.2008 0.1994 0.2072 0.2256 0.2348 RANDOM 43.3
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] 0.4 1.55 -3.07 0.91
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.388 r_dihedral_angle_4_deg 18.446 r_dihedral_angle_3_deg 14.987 r_dihedral_angle_1_deg 7.504 r_angle_refined_deg 1.681 r_angle_other_deg 1.386 r_chiral_restr 0.077 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.388 r_dihedral_angle_4_deg 18.446 r_dihedral_angle_3_deg 14.987 r_dihedral_angle_1_deg 7.504 r_angle_refined_deg 1.681 r_angle_other_deg 1.386 r_chiral_restr 0.077 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6431 Nucleic Acid Atoms Solvent Atoms 161 Heterogen Atoms 133
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction DIALS data scaling PHASER phasing